data_1KMN
#
_model_server_result.job_id            YKjkb8pIvZDQAb8hRBzToA 
_model_server_result.datetime_utc      '2025-03-22 22:24:55' 
_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          1kmn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":452}' 
#
_entry.id    1KMN 
#
_exptl.entry_id    1KMN 
_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    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         114.1 
_cell.angle_beta          97.4 
_cell.angle_gamma         90 
_cell.entry_id            1KMN 
_cell.length_a            60.9 
_cell.length_b            107.3 
_cell.length_c            107.2 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1KMN 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 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 dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 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,E,F,G,H,M,N 1 1 
C,D,I,J,K,L,O,P 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
? 3 F N N 
? 3 H N N 
? 3 J N N 
? 3 L N N 
#
_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                     1KMN 
_atom_sites.fract_transf_matrix[1][1]    0.01642 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00234 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00932 
_atom_sites.fract_transf_matrix[2][3]    0.004211 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.010322 
_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 HSO A 1 451 451 HSO HSO . 
F 3 ATP A 1 452 452 ATP ATP . 
G 2 HSO B 1 451 451 HSO HSO . 
H 3 ATP B 1 452 452 ATP ATP . 
I 2 HSO C 1 451 451 HSO HSO . 
J 3 ATP C 1 452 452 ATP ATP . 
K 2 HSO D 1 451 451 HSO HSO . 
L 3 ATP D 1 452 452 ATP ATP . 
M 4 HOH A 1 508 508 HOH HOH . 
M 4 HOH A 2 511 511 HOH HOH . 
M 4 HOH A 3 513 513 HOH HOH . 
M 4 HOH A 4 514 514 HOH HOH . 
M 4 HOH A 5 515 515 HOH HOH . 
M 4 HOH A 6 516 516 HOH HOH . 
M 4 HOH A 7 517 517 HOH HOH . 
M 4 HOH A 8 518 518 HOH HOH . 
M 4 HOH A 9 519 519 HOH HOH . 
M 4 HOH A 10 520 520 HOH HOH . 
M 4 HOH A 11 521 521 HOH HOH . 
M 4 HOH A 12 523 523 HOH HOH . 
M 4 HOH A 13 524 524 HOH HOH . 
N 4 HOH B 1 504 504 HOH HOH . 
N 4 HOH B 2 506 506 HOH HOH . 
N 4 HOH B 3 507 507 HOH HOH . 
N 4 HOH B 4 512 512 HOH HOH . 
N 4 HOH B 5 522 522 HOH HOH . 
O 4 HOH C 1 501 501 HOH HOH . 
O 4 HOH C 2 502 502 HOH HOH . 
O 4 HOH C 3 509 509 HOH HOH . 
O 4 HOH C 4 510 510 HOH HOH . 
P 4 HOH D 1 503 503 HOH HOH . 
P 4 HOH D 2 505 505 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 P PG ATP . . . F 3 -3.911 23.111 20.744 1 47.93 ? PG ATP 452 A 1 
HETATM 2 O O1G ATP . . . F 3 -2.801 24.036 20.296 1 52.17 ? O1G ATP 452 A 1 
HETATM 3 O O2G ATP . . . F 3 -3.717 21.662 20.28 1 43.57 ? O2G ATP 452 A 1 
HETATM 4 O O3G ATP . . . F 3 -4.15 23.236 22.254 1 49.18 ? O3G ATP 452 A 1 
HETATM 5 P PB ATP . . . F 3 -5.716 23.401 18.466 1 45.05 ? PB ATP 452 A 1 
HETATM 6 O O1B ATP . . . F 3 -6.333 24.647 17.894 1 42.21 ? O1B ATP 452 A 1 
HETATM 7 O O2B ATP . . . F 3 -4.708 22.619 17.686 1 42.23 ? O2B ATP 452 A 1 
HETATM 8 O O3B ATP . . . F 3 -5.155 23.732 19.943 1 44.63 ? O3B ATP 452 A 1 
HETATM 9 P PA ATP . . . F 3 -8.395 22.335 18.233 1 36.05 ? PA ATP 452 A 1 
HETATM 10 O O1A ATP . . . F 3 -9.044 23.508 18.853 1 33.35 ? O1A ATP 452 A 1 
HETATM 11 O O2A ATP . . . F 3 -8.452 22.166 16.763 1 35.2 ? O2A ATP 452 A 1 
HETATM 12 O O3A ATP . . . F 3 -6.884 22.357 18.726 1 39.51 ? O3A ATP 452 A 1 
HETATM 13 O O5' ATP . . . F 3 -8.901 20.985 18.908 1 37.02 ? O5' ATP 452 A 1 
HETATM 14 C C5' ATP . . . F 3 -9.865 21.003 19.956 1 32.21 ? C5' ATP 452 A 1 
HETATM 15 C C4' ATP . . . F 3 -9.214 20.67 21.271 1 27.04 ? C4' ATP 452 A 1 
HETATM 16 O O4' ATP . . . F 3 -8.66 19.341 21.173 1 28.67 ? O4' ATP 452 A 1 
HETATM 17 C C3' ATP . . . F 3 -8.042 21.525 21.654 1 25.21 ? C3' ATP 452 A 1 
HETATM 18 O O3' ATP . . . F 3 -8.479 22.684 22.335 1 22.94 ? O3' ATP 452 A 1 
HETATM 19 C C2' ATP . . . F 3 -7.318 20.616 22.627 1 27.91 ? C2' ATP 452 A 1 
HETATM 20 O O2' ATP . . . F 3 -7.957 20.697 23.867 1 27.33 ? O2' ATP 452 A 1 
HETATM 21 C C1' ATP . . . F 3 -7.525 19.234 21.996 1 29.62 ? C1' ATP 452 A 1 
HETATM 22 N N9 ATP . . . F 3 -6.416 18.674 21.19 1 32.58 ? N9 ATP 452 A 1 
HETATM 23 C C8 ATP . . . F 3 -6.082 18.946 19.885 1 31.85 ? C8 ATP 452 A 1 
HETATM 24 N N7 ATP . . . F 3 -5.042 18.264 19.455 1 33.69 ? N7 ATP 452 A 1 
HETATM 25 C C5 ATP . . . F 3 -4.667 17.49 20.54 1 35.24 ? C5 ATP 452 A 1 
HETATM 26 C C6 ATP . . . F 3 -3.624 16.507 20.739 1 35.63 ? C6 ATP 452 A 1 
HETATM 27 N N6 ATP . . . F 3 -2.714 16.172 19.824 1 30.52 ? N6 ATP 452 A 1 
HETATM 28 N N1 ATP . . . F 3 -3.553 15.897 21.944 1 38.07 ? N1 ATP 452 A 1 
HETATM 29 C C2 ATP . . . F 3 -4.431 16.258 22.896 1 38.95 ? C2 ATP 452 A 1 
HETATM 30 N N3 ATP . . . F 3 -5.431 17.166 22.845 1 38.19 ? N3 ATP 452 A 1 
HETATM 31 C C4 ATP . . . F 3 -5.503 17.735 21.63 1 35.34 ? C4 ATP 452 A 1 
HETATM 32 H HO2' ATP . . . F 3 -7.484 20.123 24.467 1 0 ? HO2' ATP 452 A 1 
HETATM 33 H HN61 ATP . . . F 3 -2.728 16.611 18.917 1 0 ? HN61 ATP 452 A 1 
HETATM 34 H HN62 ATP . . . F 3 -2.016 15.474 20.031 1 0 ? HN62 ATP 452 A 1 
#
_model_server_stats.io_time_ms              65 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           286 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           34 
#