data_4Y49
#
_model_server_result.job_id            T7dPfDSalSPmEK6ptnvrMg 
_model_server_result.datetime_utc      '2024-11-18 13:52:01' 
_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          4y49 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"P","auth_seq_id":901}' 
#
_entry.id    4Y49 
#
_exptl.entry_id    4Y49 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              603.16 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "GUANOSINE-5',3'-TETRAPHOSPHATE" 
_entity.pdbx_number_of_molecules    3 
_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            4Y49 
_cell.length_a            111.723 
_cell.length_b            146.486 
_cell.length_c            254.107 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4Y49 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? tetrameric 4 author_defined_assembly 1 
? tetrameric 4 author_defined_assembly 2 
? tetrameric 4 author_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,M,N,O 1 1 
E,F,G,H,P,Q,R 2 1 
I,J,K,L,S,T,U 3 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
? 5 M N N 
? 5 P N N 
? 5 S N N 
#
_chem_comp.formula           'C10 H17 N5 O17 P4' 
_chem_comp.formula_weight    603.16 
_chem_comp.id                G4P 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "GUANOSINE-5',3'-TETRAPHOSPHATE" 
_chem_comp.type              'rna linking' 
_chem_comp.pdbx_synonyms     'guanosine tetraphosphate;ppGpp' 
#
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 G4P doub 266 n n 
PB O2B G4P sing 267 n n 
PB O3B G4P sing 268 n n 
PB O3A G4P sing 269 n n 
O2B HOB2 G4P sing 270 n n 
O3B HOB3 G4P sing 271 n n 
O3A PA G4P sing 272 n n 
PA O1A G4P doub 273 n n 
PA O2A G4P sing 274 n n 
PA O5' G4P sing 275 n n 
O2A HOA2 G4P sing 276 n n 
O5' C5' G4P sing 277 n n 
C5' C4' G4P sing 278 n n 
C5' H5' G4P sing 279 n n 
C5' "H5''" G4P sing 280 n n 
C4' O4' G4P sing 281 n n 
C4' C3' G4P sing 282 n n 
C4' H4' G4P sing 283 n n 
O4' C1' G4P sing 284 n n 
C3' O3' G4P sing 285 n n 
C3' C2' G4P sing 286 n n 
C3' H3' G4P sing 287 n n 
O3' PC G4P sing 288 n n 
C2' O2' G4P sing 289 n n 
C2' C1' G4P sing 290 n n 
C2' H2' G4P sing 291 n n 
O2' HO2' G4P sing 292 n n 
C1' N9 G4P sing 293 n n 
C1' H1' G4P sing 294 n n 
N9 C8 G4P sing 295 n y 
N9 C4 G4P sing 296 n y 
C8 N7 G4P doub 297 n y 
C8 H8 G4P sing 298 n n 
N7 C5 G4P sing 299 n y 
C5 C6 G4P sing 300 n n 
C5 C4 G4P doub 301 n y 
C6 O6 G4P doub 302 n n 
C6 N1 G4P sing 303 n n 
N1 C2 G4P sing 304 n n 
N1 HN1 G4P sing 305 n n 
C2 N2 G4P sing 306 n n 
C2 N3 G4P doub 307 n n 
N2 HN21 G4P sing 308 n n 
N2 HN22 G4P sing 309 n n 
N3 C4 G4P sing 310 n n 
PC O1C G4P doub 311 n n 
PC O2C G4P sing 312 n n 
PC O3C G4P sing 313 n n 
O2C H2C G4P sing 314 n n 
O3C PD G4P sing 315 n n 
PD O1D G4P doub 316 n n 
PD O2D G4P sing 317 n n 
PD O3D G4P sing 318 n n 
O2D H2D G4P sing 319 n n 
O3D H3D G4P sing 320 n n 
#
_atom_sites.entry_id                     4Y49 
_atom_sites.fract_transf_matrix[1][1]    0.008951 
_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]    0.006827 
_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]    0.003935 
_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
M 5 G4P A 1 901 1 G4P G4P . 
N 6 CMC B 1 301 1 CMC ACO . 
O 7 ACO C 1 201 1 ACO BCO . 
P 5 G4P G 1 901 2 G4P G4P . 
Q 6 CMC H 1 301 1 CMC ACO . 
R 7 ACO I 1 201 1 ACO BCO . 
S 5 G4P M 1 901 3 G4P G4P . 
T 6 CMC N 1 301 1 CMC ACO . 
U 7 ACO O 1 201 1 ACO BCO . 
#
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 G4P . . . P 5 11.414 -8.667 529.249 1 84.14 ? PB G4P 901 G 1 
HETATM 2 O O1B G4P . . . P 5 12.022 -7.673 528.183 1 84.15 ? O1B G4P 901 G 1 
HETATM 3 O O2B G4P . . . P 5 12.403 -9.32 530.269 1 84.21 ? O2B G4P 901 G 1 
HETATM 4 O O3B G4P . . . P 5 10.466 -9.681 528.543 1 84.14 ? O3B G4P 901 G 1 
HETATM 5 O O3A G4P . . . P 5 10.476 -7.766 530.227 1 84.06 ? O3A G4P 901 G 1 
HETATM 6 P PA G4P . . . P 5 9.839 -8.343 531.658 1 84.05 ? PA G4P 901 G 1 
HETATM 7 O O1A G4P . . . P 5 9.71 -9.865 531.438 1 84.1 ? O1A G4P 901 G 1 
HETATM 8 O O2A G4P . . . P 5 10.575 -7.753 532.86 1 84.06 ? O2A G4P 901 G 1 
HETATM 9 O O5' G4P . . . P 5 8.327 -7.716 531.495 1 83.97 ? O5' G4P 901 G 1 
HETATM 10 C C5' G4P . . . P 5 7.974 -6.384 531.888 1 83.91 ? C5' G4P 901 G 1 
HETATM 11 C C4' G4P . . . P 5 8.228 -5.246 530.885 1 83.89 ? C4' G4P 901 G 1 
HETATM 12 O O4' G4P . . . P 5 7.644 -5.297 529.526 1 83.88 ? O4' G4P 901 G 1 
HETATM 13 C C3' G4P . . . P 5 7.592 -4.026 531.607 1 83.83 ? C3' G4P 901 G 1 
HETATM 14 O O3' G4P . . . P 5 8.342 -2.721 531.142 1 83.81 ? O3' G4P 901 G 1 
HETATM 15 C C2' G4P . . . P 5 6.228 -3.925 530.863 1 83.79 ? C2' G4P 901 G 1 
HETATM 16 O O2' G4P . . . P 5 5.605 -2.633 531.073 1 83.74 ? O2' G4P 901 G 1 
HETATM 17 C C1' G4P . . . P 5 6.626 -4.271 529.411 1 83.82 ? C1' G4P 901 G 1 
HETATM 18 N N9 G4P . . . P 5 5.412 -4.765 528.708 1 83.81 ? N9 G4P 901 G 1 
HETATM 19 C C8 G4P . . . P 5 4.26 -4.072 528.598 1 83.77 ? C8 G4P 901 G 1 
HETATM 20 N N7 G4P . . . P 5 3.319 -4.782 527.943 1 83.78 ? N7 G4P 901 G 1 
HETATM 21 C C5 G4P . . . P 5 3.864 -5.975 527.629 1 83.82 ? C5 G4P 901 G 1 
HETATM 22 C C6 G4P . . . P 5 3.421 -7.208 526.89 1 83.85 ? C6 G4P 901 G 1 
HETATM 23 O O6 G4P . . . P 5 2.269 -7.337 526.365 1 83.84 ? O6 G4P 901 G 1 
HETATM 24 N N1 G4P . . . P 5 4.313 -8.221 526.796 1 83.9 ? N1 G4P 901 G 1 
HETATM 25 C C2 G4P . . . P 5 5.584 -8.159 527.272 1 83.92 ? C2 G4P 901 G 1 
HETATM 26 N N2 G4P . . . P 5 6.405 -9.234 527.1 1 83.98 ? N2 G4P 901 G 1 
HETATM 27 N N3 G4P . . . P 5 6.048 -7.065 527.947 1 83.9 ? N3 G4P 901 G 1 
HETATM 28 C C4 G4P . . . P 5 5.253 -5.965 528.139 1 83.84 ? C4 G4P 901 G 1 
HETATM 29 P PC G4P . . . P 5 9.645 -2.476 530.288 1 83.86 ? PC G4P 901 G 1 
HETATM 30 O O1C G4P . . . P 5 9.708 -0.966 530.468 1 83.82 ? O1C G4P 901 G 1 
HETATM 31 O O2C G4P . . . P 5 9.623 -2.982 528.779 1 83.89 ? O2C G4P 901 G 1 
HETATM 32 O O3C G4P . . . P 5 11.137 -2.95 531.19 1 83.92 ? O3C G4P 901 G 1 
HETATM 33 P PD G4P . . . P 5 12.492 -2.533 530.244 1 83.98 ? PD G4P 901 G 1 
HETATM 34 O O1D G4P . . . P 5 12.221 -1.026 529.6 1 83.93 ? O1D G4P 901 G 1 
HETATM 35 O O2D G4P . . . P 5 13.595 -2.548 531.228 1 84.02 ? O2D G4P 901 G 1 
HETATM 36 O O3D G4P . . . P 5 12.477 -3.346 528.826 1 84.02 ? O3D G4P 901 G 1 
#
_model_server_stats.io_time_ms              53 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    47 
_model_server_stats.query_time_ms           1013 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           36 
#