data_1KYI
#
_model_server_result.job_id            9AnqrD1GisEZctOYwH6dpw 
_model_server_result.datetime_utc      '2025-02-05 12:57:35' 
_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          1kyi 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"VA","auth_seq_id":461}' 
#
_entry.id    1KYI 
#
_exptl.entry_id    1KYI 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              507.181 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-TRIPHOSPHATE" 
_entity.pdbx_number_of_molecules    12 
_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            1KYI 
_cell.length_a            208.51 
_cell.length_b            219.97 
_cell.length_c            242.63 
_cell.Z_PDB               48 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1KYI 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    24-meric 
_pdbx_struct_assembly.oligomeric_count      24 
_pdbx_struct_assembly.details               author_and_software_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,OA,PA,QA,RA,SA,TA,UA,VA 
_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 Y N N 
? 3 Z N N 
? 3 AA N N 
? 3 BA N N 
? 3 CA N N 
? 3 DA N N 
? 3 QA N N 
? 3 RA N N 
? 3 SA N N 
? 3 TA N N 
? 3 UA N N 
? 3 VA 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
covale ? covale1 G OG1 THR 1 G THR 1 1_555 EA CS LVS . G LVS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale2 H OG1 THR 1 H THR 1 1_555 FA CS LVS . H LVS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? 
covale ? covale3 I OG1 THR 1 I THR 1 1_555 GA CS LVS . I LVS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.285 ? 
covale ? covale4 J OG1 THR 1 J THR 1 1_555 HA CS LVS . J LVS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.49 ? 
covale ? covale5 K OG1 THR 1 K THR 1 1_555 IA CS LVS . K LVS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.473 ? 
covale ? covale6 L OG1 THR 1 L THR 1 1_555 JA CS LVS . L LVS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.31 ? 
covale ? covale7 M OG1 THR 1 M THR 1 1_555 KA CS LVS . M LVS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.352 ? 
covale ? covale8 N OG1 THR 1 N THR 1 1_555 LA CS LVS . N LVS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale9 O OG1 THR 1 O THR 1 1_555 MA CS LVS . O LVS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale10 P OG1 THR 1 P THR 1 1_555 NA CS LVS . P LVS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale11 Q OG1 THR 1 Q THR 1 1_555 OA CS LVS . Q LVS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale12 R OG1 THR 1 R THR 1 1_555 PA CS LVS . R LVS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
#
_chem_comp.formula           'C10 H16 N5 O13 P3' 
_chem_comp.formula_weight    507.181 
_chem_comp.id                ATP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "ADENOSINE-5'-TRIPHOSPHATE" 
_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
PG O1G ATP doub 70 n n 
PG O2G ATP sing 71 n n 
PG O3G ATP sing 72 n n 
PG O3B ATP sing 73 n n 
O2G HOG2 ATP sing 74 n n 
O3G HOG3 ATP sing 75 n n 
PB O1B ATP doub 76 n n 
PB O2B ATP sing 77 n n 
PB O3B ATP sing 78 n n 
PB O3A ATP sing 79 n n 
O2B HOB2 ATP sing 80 n n 
PA O1A ATP doub 81 n n 
PA O2A ATP sing 82 n n 
PA O3A ATP sing 83 n n 
PA O5' ATP sing 84 n n 
O2A HOA2 ATP sing 85 n n 
O5' C5' ATP sing 86 n n 
C5' C4' ATP sing 87 n n 
C5' "H5'1" ATP sing 88 n n 
C5' "H5'2" ATP sing 89 n n 
C4' O4' ATP sing 90 n n 
C4' C3' ATP sing 91 n n 
C4' H4' ATP sing 92 n n 
O4' C1' ATP sing 93 n n 
C3' O3' ATP sing 94 n n 
C3' C2' ATP sing 95 n n 
C3' H3' ATP sing 96 n n 
O3' HO3' ATP sing 97 n n 
C2' O2' ATP sing 98 n n 
C2' C1' ATP sing 99 n n 
C2' H2' ATP sing 100 n n 
O2' HO2' ATP sing 101 n n 
C1' N9 ATP sing 102 n n 
C1' H1' ATP sing 103 n n 
N9 C8 ATP sing 104 n y 
N9 C4 ATP sing 105 n y 
C8 N7 ATP doub 106 n y 
C8 H8 ATP sing 107 n n 
N7 C5 ATP sing 108 n y 
C5 C6 ATP sing 109 n y 
C5 C4 ATP doub 110 n y 
C6 N6 ATP sing 111 n n 
C6 N1 ATP doub 112 n y 
N6 HN61 ATP sing 113 n n 
N6 HN62 ATP sing 114 n n 
N1 C2 ATP sing 115 n y 
C2 N3 ATP doub 116 n y 
C2 H2 ATP sing 117 n n 
N3 C4 ATP sing 118 n y 
#
_atom_sites.entry_id                     1KYI 
_atom_sites.fract_transf_matrix[1][1]    0.004796 
_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]    0.004546 
_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]    0.004122 
_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
Y 3 ATP A 1 450 450 ATP ATP . 
Z 3 ATP B 1 451 450 ATP ATP . 
AA 3 ATP C 1 452 450 ATP ATP . 
BA 3 ATP D 1 453 450 ATP ATP . 
CA 3 ATP E 1 454 450 ATP ATP . 
DA 3 ATP F 1 455 450 ATP ATP . 
EA 4 LVS G 1 175 174 LVS LEU . 
FA 4 LVS H 1 175 174 LVS LEU . 
GA 4 LVS I 1 175 174 LVS LEU . 
HA 4 LVS J 1 175 174 LVS LEU . 
IA 4 LVS K 1 175 174 LVS LEU . 
JA 4 LVS L 1 175 174 LVS LEU . 
KA 4 LVS M 1 175 174 LVS LEU . 
LA 4 LVS N 1 175 174 LVS LEU . 
MA 4 LVS O 1 175 174 LVS LEU . 
NA 4 LVS P 1 175 174 LVS LEU . 
OA 4 LVS Q 1 175 174 LVS LEU . 
PA 4 LVS R 1 175 174 LVS LEU . 
QA 3 ATP S 1 456 450 ATP ATP . 
RA 3 ATP T 1 457 450 ATP ATP . 
SA 3 ATP U 1 458 450 ATP ATP . 
TA 3 ATP V 1 459 450 ATP ATP . 
UA 3 ATP W 1 460 450 ATP ATP . 
VA 3 ATP X 1 461 450 ATP ATP . 
#
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 PG ATP . . . VA 3 182.001 98.245 16.221 1 147.62 ? PG ATP 461 X 1 
HETATM 2 O O1G ATP . . . VA 3 180.71 98.778 15.648 1 147.08 ? O1G ATP 461 X 1 
HETATM 3 O O2G ATP . . . VA 3 181.958 97.789 17.663 1 147.16 ? O2G ATP 461 X 1 
HETATM 4 O O3G ATP . . . VA 3 182.872 97.434 15.286 1 147.54 ? O3G ATP 461 X 1 
HETATM 5 P PB ATP . . . VA 3 183.804 100.399 15.319 1 144.66 ? PB ATP 461 X 1 
HETATM 6 O O1B ATP . . . VA 3 184.655 101.378 16.093 1 144.73 ? O1B ATP 461 X 1 
HETATM 7 O O2B ATP . . . VA 3 184.47 99.352 14.462 1 144.58 ? O2B ATP 461 X 1 
HETATM 8 O O3B ATP . . . VA 3 182.855 99.607 16.352 1 146.48 ? O3B ATP 461 X 1 
HETATM 9 P PA ATP . . . VA 3 183.045 101.802 12.871 1 140.18 ? PA ATP 461 X 1 
HETATM 10 O O1A ATP . . . VA 3 182.87 100.638 11.923 1 139.67 ? O1A ATP 461 X 1 
HETATM 11 O O2A ATP . . . VA 3 184.34 102.57 12.869 1 140.01 ? O2A ATP 461 X 1 
HETATM 12 O O3A ATP . . . VA 3 182.819 101.247 14.367 1 142.25 ? O3A ATP 461 X 1 
HETATM 13 O O5' ATP . . . VA 3 181.902 102.859 12.544 1 143.45 ? O5' ATP 461 X 1 
HETATM 14 C C5' ATP . . . VA 3 181.839 103.462 11.258 1 141.24 ? C5' ATP 461 X 1 
HETATM 15 C C4' ATP . . . VA 3 181.288 104.859 11.361 1 140.11 ? C4' ATP 461 X 1 
HETATM 16 O O4' ATP . . . VA 3 181.979 105.555 12.43 1 139.05 ? O4' ATP 461 X 1 
HETATM 17 C C3' ATP . . . VA 3 181.477 105.703 10.107 1 139.79 ? C3' ATP 461 X 1 
HETATM 18 O O3' ATP . . . VA 3 180.404 106.627 9.95 1 139.96 ? O3' ATP 461 X 1 
HETATM 19 C C2' ATP . . . VA 3 182.782 106.435 10.394 1 138.77 ? C2' ATP 461 X 1 
HETATM 20 O O2' ATP . . . VA 3 182.86 107.662 9.697 1 138.62 ? O2' ATP 461 X 1 
HETATM 21 C C1' ATP . . . VA 3 182.675 106.667 11.903 1 137.66 ? C1' ATP 461 X 1 
HETATM 22 N N9 ATP . . . VA 3 183.971 106.739 12.58 1 135.54 ? N9 ATP 461 X 1 
HETATM 23 C C8 ATP . . . VA 3 184.505 105.797 13.424 1 134.53 ? C8 ATP 461 X 1 
HETATM 24 N N7 ATP . . . VA 3 185.688 106.114 13.892 1 134.44 ? N7 ATP 461 X 1 
HETATM 25 C C5 ATP . . . VA 3 185.954 107.349 13.32 1 133.95 ? C5 ATP 461 X 1 
HETATM 26 C C6 ATP . . . VA 3 187.054 108.216 13.418 1 133.3 ? C6 ATP 461 X 1 
HETATM 27 N N6 ATP . . . VA 3 188.133 107.96 14.161 1 132.57 ? N6 ATP 461 X 1 
HETATM 28 N N1 ATP . . . VA 3 187.009 109.37 12.719 1 133 ? N1 ATP 461 X 1 
HETATM 29 C C2 ATP . . . VA 3 185.925 109.625 11.976 1 133.38 ? C2 ATP 461 X 1 
HETATM 30 N N3 ATP . . . VA 3 184.827 108.892 11.804 1 134.13 ? N3 ATP 461 X 1 
HETATM 31 C C4 ATP . . . VA 3 184.904 107.75 12.51 1 134.57 ? C4 ATP 461 X 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    66 
_model_server_stats.query_time_ms           317 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           31 
#