data_1CUL
#
_model_server_result.job_id            DFhDcZv6ndkU8RA5KXciwg 
_model_server_result.datetime_utc      '2024-11-26 23:12:42' 
_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          1cul 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":1082}' 
#
_entry.id    1CUL 
#
_exptl.entry_id    1CUL 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              315.222 
_entity.id                          8 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "2',5'-DIDEOXY-ADENOSINE 3'-MONOPHOSPHATE" 
_entity.pdbx_number_of_molecules    1 
_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            1CUL 
_cell.length_a            118.2 
_cell.length_b            133.6 
_cell.length_c            70.6 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1CUL 
_symmetry.cell_setting             orthorhombic 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
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 trimeric 3 author_and_software_defined_assembly 1 
PISA hexameric 6 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,I,J,K,L,M,N,O,P,Q 1 1 
A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q 2 1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      8 
_struct_asym.id                             I 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 O1A 3PO . A 3PO 1003 1_555 I O1P 103 . B 103 1082 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? 
covale ? covale2 G PA 3PO . A 3PO 1003 1_555 I O2P 103 . B 103 1082 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? 
covale ? covale3 G O2A 3PO . A 3PO 1003 1_555 I P 103 . B 103 1082 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.797 ? 
metalc ? metalc1 A OD1 ASP 33 A ASP 396 1_555 D MG MG . A MG 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? 
metalc ? metalc2 A OD2 ASP 33 A ASP 396 1_555 E MG MG . A MG 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.959 ? 
metalc ? metalc3 A O ILE 34 A ILE 397 1_555 D MG MG . A MG 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
metalc ? metalc4 A OD1 ASP 77 A ASP 440 1_555 D MG MG . A MG 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
metalc ? metalc5 A OD1 ASP 77 A ASP 440 1_555 E MG MG . A MG 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.035 ? 
metalc ? metalc6 A OD2 ASP 77 A ASP 440 1_555 E MG MG . A MG 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.636 ? 
metalc ? metalc7 G O2B 3PO . A 3PO 1003 1_555 D MG MG . A MG 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? 
metalc ? metalc8 G O2G 3PO . A 3PO 1003 1_555 D MG MG . A MG 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.576 ? 
metalc ? metalc9 G O5' 3PO . A 3PO 1003 1_555 E MG MG . A MG 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.908 ? 
metalc ? metalc10 G O1A 3PO . A 3PO 1003 1_555 E MG MG . A MG 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? 
metalc ? metalc11 E MG MG . A MG 1007 1_555 I O1P 103 . B 103 1082 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? 
metalc ? metalc12 C OG SER 54 C SER 54 1_555 K MG MG . C MG 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.548 ? 
metalc ? metalc13 C OG1 THR 190 C THR 204 1_555 K MG MG . C MG 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? 
metalc ? metalc14 N O2B GSP . C GSP 395 1_555 K MG MG . C MG 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.87 ? 
metalc ? metalc15 N O2G GSP . C GSP 395 1_555 K MG MG . C MG 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? 
metalc ? metalc16 N O3B GSP . C GSP 395 1_555 K MG MG . C MG 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.063 ? 
metalc ? metalc17 K MG MG . C MG 396 1_555 Q O HOH . C HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? 
metalc ? metalc18 K MG MG . C MG 396 1_555 Q O HOH . C HOH 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? 
#
_chem_comp.formula           'C10 H14 N5 O5 P' 
_chem_comp.formula_weight    315.222 
_chem_comp.id                103 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "2',5'-DIDEOXY-ADENOSINE 3'-MONOPHOSPHATE" 
_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
P O1P 103 doub 1 n n 
P O2P 103 sing 2 n n 
P O3P 103 sing 3 n n 
P O3' 103 sing 4 n n 
O2P HOP2 103 sing 5 n n 
O3P HOP3 103 sing 6 n n 
C5' C4' 103 sing 7 n n 
C5' "H5'1" 103 sing 8 n n 
C5' "H5'2" 103 sing 9 n n 
C5' "H5'3" 103 sing 10 n n 
C4' O4' 103 sing 11 n n 
C4' C3' 103 sing 12 n n 
C4' H4' 103 sing 13 n n 
O4' C1' 103 sing 14 n n 
C3' O3' 103 sing 15 n n 
C3' C2' 103 sing 16 n n 
C3' H3' 103 sing 17 n n 
C2' C1' 103 sing 18 n n 
C2' "H2'1" 103 sing 19 n n 
C2' "H2'2" 103 sing 20 n n 
C1' N9 103 sing 21 n n 
C1' H1' 103 sing 22 n n 
N9 C8 103 sing 23 n y 
N9 C4 103 sing 24 n y 
C8 N7 103 doub 25 n y 
C8 H8 103 sing 26 n n 
N7 C5 103 sing 27 n y 
C5 C6 103 sing 28 n y 
C5 C4 103 doub 29 n y 
C6 N6 103 sing 30 n n 
C6 N1 103 doub 31 n y 
N6 HN61 103 sing 32 n n 
N6 HN62 103 sing 33 n n 
N1 C2 103 sing 34 n y 
C2 N3 103 doub 35 n y 
C2 H2 103 sing 36 n n 
N3 C4 103 sing 37 n y 
#
_atom_sites.entry_id                     1CUL 
_atom_sites.fract_transf_matrix[1][1]    0.00846 
_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]    0.007485 
_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]    0.014164 
_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
D 4 MG A 1 1006 1006 MG MG . 
E 4 MG A 1 1007 1007 MG MG . 
F 5 FOK A 1 1001 1001 FOK FOK . 
G 6 3PO A 1 1003 1003 3PO 3PO . 
H 7 MES A 1 1004 1004 MES MES . 
I 8 103 B 1 1082 1002 103 103 . 
J 7 MES B 1 1083 1005 MES MES . 
K 4 MG C 1 396 396 MG MG . 
L 9 CL C 1 397 397 CL CL . 
M 9 CL C 1 398 398 CL CL . 
N 10 GSP C 1 395 395 GSP GSP . 
O 11 HOH A 1 11 11 HOH HOH . 
O 11 HOH A 2 19 19 HOH HOH . 
O 11 HOH A 3 20 20 HOH HOH . 
O 11 HOH A 4 23 23 HOH HOH . 
O 11 HOH A 5 24 24 HOH HOH . 
O 11 HOH A 6 30 30 HOH HOH . 
O 11 HOH A 7 31 31 HOH HOH . 
O 11 HOH A 8 32 32 HOH HOH . 
O 11 HOH A 9 33 33 HOH HOH . 
O 11 HOH A 10 57 57 HOH HOH . 
O 11 HOH A 11 59 59 HOH HOH . 
O 11 HOH A 12 76 76 HOH HOH . 
O 11 HOH A 13 81 81 HOH HOH . 
O 11 HOH A 14 82 82 HOH HOH . 
P 11 HOH B 1 8 8 HOH HOH . 
P 11 HOH B 2 12 12 HOH HOH . 
P 11 HOH B 3 13 13 HOH HOH . 
P 11 HOH B 4 14 14 HOH HOH . 
P 11 HOH B 5 15 15 HOH HOH . 
P 11 HOH B 6 16 16 HOH HOH . 
P 11 HOH B 7 17 17 HOH HOH . 
P 11 HOH B 8 18 18 HOH HOH . 
P 11 HOH B 9 21 21 HOH HOH . 
P 11 HOH B 10 22 22 HOH HOH . 
P 11 HOH B 11 25 25 HOH HOH . 
P 11 HOH B 12 26 26 HOH HOH . 
P 11 HOH B 13 27 27 HOH HOH . 
P 11 HOH B 14 28 28 HOH HOH . 
P 11 HOH B 15 34 34 HOH HOH . 
P 11 HOH B 16 36 36 HOH HOH . 
P 11 HOH B 17 37 37 HOH HOH . 
P 11 HOH B 18 38 38 HOH HOH . 
P 11 HOH B 19 54 54 HOH HOH . 
P 11 HOH B 20 55 55 HOH HOH . 
P 11 HOH B 21 56 56 HOH HOH . 
P 11 HOH B 22 58 58 HOH HOH . 
P 11 HOH B 23 60 60 HOH HOH . 
P 11 HOH B 24 61 61 HOH HOH . 
P 11 HOH B 25 62 62 HOH HOH . 
P 11 HOH B 26 73 73 HOH HOH . 
P 11 HOH B 27 77 77 HOH HOH . 
P 11 HOH B 28 78 78 HOH HOH . 
P 11 HOH B 29 80 80 HOH HOH . 
P 11 HOH B 30 83 83 HOH HOH . 
P 11 HOH B 31 84 84 HOH HOH . 
P 11 HOH B 32 85 85 HOH HOH . 
P 11 HOH B 33 86 86 HOH HOH . 
Q 11 HOH C 1 399 1 HOH HOH . 
Q 11 HOH C 2 400 2 HOH HOH . 
Q 11 HOH C 3 401 3 HOH HOH . 
Q 11 HOH C 4 402 4 HOH HOH . 
Q 11 HOH C 5 403 5 HOH HOH . 
Q 11 HOH C 6 404 7 HOH HOH . 
Q 11 HOH C 7 405 10 HOH HOH . 
Q 11 HOH C 8 406 29 HOH HOH . 
Q 11 HOH C 9 407 35 HOH HOH . 
Q 11 HOH C 10 408 39 HOH HOH . 
Q 11 HOH C 11 409 40 HOH HOH . 
Q 11 HOH C 12 410 41 HOH HOH . 
Q 11 HOH C 13 411 42 HOH HOH . 
Q 11 HOH C 14 412 43 HOH HOH . 
Q 11 HOH C 15 413 44 HOH HOH . 
Q 11 HOH C 16 414 45 HOH HOH . 
Q 11 HOH C 17 415 46 HOH HOH . 
Q 11 HOH C 18 416 47 HOH HOH . 
Q 11 HOH C 19 417 48 HOH HOH . 
Q 11 HOH C 20 418 49 HOH HOH . 
Q 11 HOH C 21 419 50 HOH HOH . 
Q 11 HOH C 22 420 51 HOH HOH . 
Q 11 HOH C 23 421 52 HOH HOH . 
Q 11 HOH C 24 422 53 HOH HOH . 
Q 11 HOH C 25 423 63 HOH HOH . 
Q 11 HOH C 26 424 65 HOH HOH . 
Q 11 HOH C 27 425 67 HOH HOH . 
Q 11 HOH C 28 426 68 HOH HOH . 
Q 11 HOH C 29 427 69 HOH HOH . 
Q 11 HOH C 30 428 71 HOH HOH . 
Q 11 HOH C 31 429 72 HOH HOH . 
Q 11 HOH C 32 430 74 HOH HOH . 
Q 11 HOH C 33 431 75 HOH HOH . 
Q 11 HOH C 34 432 79 HOH HOH . 
Q 11 HOH C 35 433 88 HOH HOH . 
Q 11 HOH C 36 434 89 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 P 103 . . . I 8 54.834 -9.476 53.032 0.5 49.6 ? P 103 1082 B 1 
HETATM 2 O O1P 103 . . . I 8 53.853 -9.945 54.046 0.5 49.61 ? O1P 103 1082 B 1 
HETATM 3 O O2P 103 . . . I 8 56.002 -8.665 53.455 0.5 48.35 ? O2P 103 1082 B 1 
HETATM 4 O O3P 103 . . . I 8 54.097 -8.724 51.986 0.5 47.48 ? O3P 103 1082 B 1 
HETATM 5 C C5' 103 . . . I 8 58.963 -11.266 51.999 1 35.48 ? C5' 103 1082 B 1 
HETATM 6 C C4' 103 . . . I 8 57.56 -11.603 51.583 1 40.23 ? C4' 103 1082 B 1 
HETATM 7 O O4' 103 . . . I 8 57.49 -12.97 51.095 1 38.16 ? O4' 103 1082 B 1 
HETATM 8 C C3' 103 . . . I 8 56.496 -11.487 52.685 1 41.37 ? C3' 103 1082 B 1 
HETATM 9 O O3' 103 . . . I 8 55.372 -10.742 52.203 1 47.97 ? O3' 103 1082 B 1 
HETATM 10 C C2' 103 . . . I 8 56.083 -12.924 52.947 1 39.99 ? C2' 103 1082 B 1 
HETATM 11 C C1' 103 . . . I 8 56.324 -13.588 51.602 1 36.81 ? C1' 103 1082 B 1 
HETATM 12 N N9 103 . . . I 8 56.569 -15.028 51.669 1 33.01 ? N9 103 1082 B 1 
HETATM 13 C C8 103 . . . I 8 57.733 -15.661 52.031 1 31.2 ? C8 103 1082 B 1 
HETATM 14 N N7 103 . . . I 8 57.646 -16.966 52.016 1 33.94 ? N7 103 1082 B 1 
HETATM 15 C C5 103 . . . I 8 56.338 -17.21 51.615 1 30.72 ? C5 103 1082 B 1 
HETATM 16 C C6 103 . . . I 8 55.62 -18.397 51.414 1 32.41 ? C6 103 1082 B 1 
HETATM 17 N N6 103 . . . I 8 56.153 -19.611 51.577 1 34.85 ? N6 103 1082 B 1 
HETATM 18 N N1 103 . . . I 8 54.323 -18.297 51.026 1 30.58 ? N1 103 1082 B 1 
HETATM 19 C C2 103 . . . I 8 53.808 -17.081 50.843 1 28.06 ? C2 103 1082 B 1 
HETATM 20 N N3 103 . . . I 8 54.387 -15.892 50.994 1 30.2 ? N3 103 1082 B 1 
HETATM 21 C C4 103 . . . I 8 55.667 -16.028 51.391 1 28.7 ? C4 103 1082 B 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           537 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           21 
#