data_1XTU
#
_model_server_result.job_id            v2OULFdb53PSnkQrGPyzsg 
_model_server_result.datetime_utc      '2024-10-14 07:31:30' 
_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          1xtu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"V","auth_seq_id":7260}' 
#
_entry.id    1XTU 
#
_exptl.entry_id    1XTU 
_exptl.method      'X-RAY DIFFRACTION' 
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_entity.details                     ? 
_entity.formula_weight              483.156 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "CYTIDINE-5'-TRIPHOSPHATE" 
_entity.pdbx_number_of_molecules    8 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         109 
_cell.angle_beta          90.76 
_cell.angle_gamma         115.4 
_cell.entry_id            1XTU 
_cell.length_a            71.67 
_cell.length_b            76.51 
_cell.length_c            91.45 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1XTU 
_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 tetrameric 4 author_and_software_defined_assembly 1 
PISA tetrameric 4 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,D,E,H,I,J,N,O,P,Q,W,X 1 1 
B,C,F,G,K,L,M,R,S,T,U,V 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 J N N 
? 3 M N N 
? 3 O N N 
? 3 Q N N 
? 3 S N N 
? 3 U N N 
? 3 V N N 
? 3 X N N 
#
_chem_comp.formula           'C9 H16 N3 O14 P3' 
_chem_comp.formula_weight    483.156 
_chem_comp.id                CTP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "CYTIDINE-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
N1 C2 CTP sing 70 n n 
N1 C6 CTP sing 71 n n 
N1 C1' CTP sing 72 n n 
C2 N3 CTP sing 73 n n 
C2 O2 CTP doub 74 n n 
N3 C4 CTP doub 75 n n 
C4 C5 CTP sing 76 n n 
C4 N4 CTP sing 77 n n 
C5 C6 CTP doub 78 n n 
C5 H5 CTP sing 79 n n 
C6 H6 CTP sing 80 n n 
N4 HN41 CTP sing 81 n n 
N4 HN42 CTP sing 82 n n 
C1' C2' CTP sing 83 n n 
C1' O4' CTP sing 84 n n 
C1' H1' CTP sing 85 n n 
C2' O2' CTP sing 86 n n 
C2' C3' CTP sing 87 n n 
C2' H2' CTP sing 88 n n 
O2' HO2' CTP sing 89 n n 
C3' C4' CTP sing 90 n n 
C3' O3' CTP sing 91 n n 
C3' H3' CTP sing 92 n n 
C4' O4' CTP sing 93 n n 
C4' C5' CTP sing 94 n n 
C4' H4' CTP sing 95 n n 
O3' HO3' CTP sing 96 n n 
C5' O5' CTP sing 97 n n 
C5' "H5'1" CTP sing 98 n n 
C5' "H5'2" CTP sing 99 n n 
O5' PA CTP sing 100 n n 
PA O1A CTP doub 101 n n 
PA O2A CTP sing 102 n n 
PA O3A CTP sing 103 n n 
O2A HOA2 CTP sing 104 n n 
O3A PB CTP sing 105 n n 
PB O1B CTP doub 106 n n 
PB O2B CTP sing 107 n n 
PB O3B CTP sing 108 n n 
O2B HOB2 CTP sing 109 n n 
O3B PG CTP sing 110 n n 
PG O1G CTP doub 111 n n 
PG O2G CTP sing 112 n n 
PG O3G CTP sing 113 n n 
O2G HOG2 CTP sing 114 n n 
O3G HOG3 CTP sing 115 n n 
#
_atom_sites.entry_id                     1XTU 
_atom_sites.fract_transf_matrix[1][1]    0.013953 
_atom_sites.fract_transf_matrix[1][2]    0.006625 
_atom_sites.fract_transf_matrix[1][3]    0.002811 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014469 
_atom_sites.fract_transf_matrix[2][3]    0.005704 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.011755 
_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
I 2 U5P A 1 1250 250 U5P U5P . 
J 3 CTP A 1 1260 260 CTP CTP . 
K 2 U5P B 1 2250 250 U5P U5P . 
L 2 U5P C 1 3250 250 U5P U5P . 
M 3 CTP C 1 3260 260 CTP CTP . 
N 2 U5P D 1 4250 250 U5P U5P . 
O 3 CTP D 1 4260 260 CTP CTP . 
P 2 U5P E 1 5250 250 U5P U5P . 
Q 3 CTP E 1 5260 260 CTP CTP . 
R 2 U5P F 1 6250 250 U5P U5P . 
S 3 CTP F 1 6260 260 CTP CTP . 
T 2 U5P G 1 7250 250 U5P U5P . 
U 3 CTP G 1 2260 260 CTP CTP . 
V 3 CTP G 1 7260 260 CTP CTP . 
W 2 U5P H 1 8250 250 U5P U5P . 
X 3 CTP H 1 8260 260 CTP CTP . 
#
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 N N1 CTP . . . V 3 38.302 -15.612 25.348 1 53.86 ? N1 CTP 7260 G 1 
HETATM 2 C C2 CTP . . . V 3 38.699 -16.865 24.863 1 52.3 ? C2 CTP 7260 G 1 
HETATM 3 N N3 CTP . . . V 3 38.801 -16.972 23.458 1 53.36 ? N3 CTP 7260 G 1 
HETATM 4 C C4 CTP . . . V 3 38.514 -15.866 22.604 1 53.49 ? C4 CTP 7260 G 1 
HETATM 5 C C5 CTP . . . V 3 38.124 -14.639 23.078 1 50.74 ? C5 CTP 7260 G 1 
HETATM 6 C C6 CTP . . . V 3 38.011 -14.506 24.523 1 50.74 ? C6 CTP 7260 G 1 
HETATM 7 O O2 CTP . . . V 3 38.962 -17.873 25.585 1 49.65 ? O2 CTP 7260 G 1 
HETATM 8 N N4 CTP . . . V 3 38.651 -16.101 21.22 1 53.9 ? N4 CTP 7260 G 1 
HETATM 9 C C1' CTP . . . V 3 38.168 -15.465 26.945 1 55.2 ? C1' CTP 7260 G 1 
HETATM 10 C C2' CTP . . . V 3 39.384 -14.859 27.598 1 54.58 ? C2' CTP 7260 G 1 
HETATM 11 O O2' CTP . . . V 3 39.577 -15.434 28.902 1 51.5 ? O2' CTP 7260 G 1 
HETATM 12 C C3' CTP . . . V 3 39.07 -13.406 27.588 1 58.32 ? C3' CTP 7260 G 1 
HETATM 13 C C4' CTP . . . V 3 37.533 -13.436 28.036 1 61.13 ? C4' CTP 7260 G 1 
HETATM 14 O O4' CTP . . . V 3 37.002 -14.61 27.215 1 58.88 ? O4' CTP 7260 G 1 
HETATM 15 O O3' CTP . . . V 3 39.739 -12.709 28.636 1 56.08 ? O3' CTP 7260 G 1 
HETATM 16 C C5' CTP . . . V 3 36.851 -11.99 27.897 1 67.65 ? C5' CTP 7260 G 1 
HETATM 17 O O5' CTP . . . V 3 35.741 -11.9 26.918 1 77.2 ? O5' CTP 7260 G 1 
HETATM 18 P PA CTP . . . V 3 34.95 -10.278 26.628 1 87.99 ? PA CTP 7260 G 1 
HETATM 19 O O1A CTP . . . V 3 35.421 -9.647 25.229 1 84.61 ? O1A CTP 7260 G 1 
HETATM 20 O O2A CTP . . . V 3 33.393 -10.456 27.032 1 86.02 ? O2A CTP 7260 G 1 
HETATM 21 O O3A CTP . . . V 3 35.752 -9.439 27.893 1 92.14 ? O3A CTP 7260 G 1 
HETATM 22 P PB CTP . . . V 3 34.901 -8.908 29.228 1 97.82 ? PB CTP 7260 G 1 
HETATM 23 O O1B CTP . . . V 3 34.273 -10.251 30.065 1 98.8 ? O1B CTP 7260 G 1 
HETATM 24 O O2B CTP . . . V 3 33.633 -8.07 28.819 1 99.09 ? O2B CTP 7260 G 1 
HETATM 25 O O3B CTP . . . V 3 35.943 -8.163 30.173 1 100.72 ? O3B CTP 7260 G 1 
HETATM 26 P PG CTP . . . V 3 37.088 -9.261 30.804 1 104.67 ? PG CTP 7260 G 1 
HETATM 27 O O1G CTP . . . V 3 37.946 -9.835 29.637 1 104.12 ? O1G CTP 7260 G 1 
HETATM 28 O O2G CTP . . . V 3 36.318 -10.33 31.668 1 102.3 ? O2G CTP 7260 G 1 
HETATM 29 O O3G CTP . . . V 3 38.171 -8.412 31.8 1 103.69 ? O3G CTP 7260 G 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    16 
_model_server_stats.query_time_ms           298 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           29 
#