data_1MRS
#
_model_server_result.job_id            Xecy0Hz7EPcAEC-wEBrFbw 
_model_server_result.datetime_utc      '2024-10-11 21:44:18' 
_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          1mrs 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":217}' 
#
_entry.id    1MRS 
#
_exptl.entry_id    1MRS 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              338.208 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5-HYDROXYMETHYLURIDINE-2'-DEOXY-5'-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         120 
_cell.entry_id            1MRS 
_cell.length_a            76.4 
_cell.length_b            76.4 
_cell.length_c            134.4 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1MRS 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        179 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 65 2 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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' 8_555 x-y,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             E 
_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
metalc ? metalc1 A OD1 ASP 9 A ASP 9 1_555 D MG MG . A MG 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? 
metalc ? metalc2 A OE2 GLU 166 A GLU 166 1_555 D MG MG . A MG 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? 
metalc ? metalc3 E OP2 5HU . A 5HU 217 1_555 D MG MG . A MG 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? 
metalc ? metalc4 D MG MG . A MG 300 1_555 F O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? 
metalc ? metalc5 D MG MG . A MG 300 1_555 F O HOH . A HOH 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.976 ? 
metalc ? metalc6 D MG MG . A MG 300 1_555 F O HOH . A HOH 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? 
#
_chem_comp.formula           'C10 H15 N2 O9 P' 
_chem_comp.formula_weight    338.208 
_chem_comp.id                5HU 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "5-HYDROXYMETHYLURIDINE-2'-DEOXY-5'-MONOPHOSPHATE" 
_chem_comp.type              'dna linking' 
_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 OP1 5HU doub 1 n n 
P OP2 5HU sing 2 n n 
P OP3 5HU sing 3 n n 
P O5' 5HU sing 4 n n 
OP2 HO2P 5HU sing 5 n n 
OP3 HO3P 5HU sing 6 n n 
O5' C5' 5HU sing 7 n n 
C5' C4' 5HU sing 8 n n 
C5' H5' 5HU sing 9 n n 
C5' "H5''" 5HU sing 10 n n 
C4' O4' 5HU sing 11 n n 
C4' C3' 5HU sing 12 n n 
C4' HC4' 5HU sing 13 n n 
O4' C1' 5HU sing 14 n n 
C3' O3' 5HU sing 15 n n 
C3' C2' 5HU sing 16 n n 
C3' HC3' 5HU sing 17 n n 
O3' HO3' 5HU sing 18 n n 
C2' C1' 5HU sing 19 n n 
C2' H2' 5HU sing 20 n n 
C2' "H2''" 5HU sing 21 n n 
C1' N1 5HU sing 22 n n 
C1' HC1' 5HU sing 23 n n 
N1 C2 5HU sing 24 n n 
N1 C6 5HU sing 25 n n 
C2 O2 5HU doub 26 n n 
C2 N3 5HU sing 27 n n 
N3 C4 5HU sing 28 n n 
N3 HN3 5HU sing 29 n n 
C4 O4 5HU doub 30 n n 
C4 C5 5HU sing 31 n n 
C5 C5A 5HU sing 32 n n 
C5 C6 5HU doub 33 n n 
C5A O5B 5HU sing 34 n n 
C5A H5A1 5HU sing 35 n n 
C5A H5A2 5HU sing 36 n n 
C6 HC6 5HU sing 37 n n 
O5B HO5B 5HU sing 38 n n 
#
_atom_sites.entry_id                     1MRS 
_atom_sites.fract_transf_matrix[1][1]    0.013089 
_atom_sites.fract_transf_matrix[1][2]    0.007557 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015114 
_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]    0.00744 
_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
B 2 SO4 A 1 219 219 SO4 SO4 . 
C 2 SO4 A 1 220 220 SO4 SO4 . 
D 3 MG A 1 300 300 MG MG . 
E 4 5HU A 1 217 217 5HU 5HU . 
F 5 HOH A 1 301 1 HOH HOH . 
F 5 HOH A 2 302 2 HOH HOH . 
F 5 HOH A 3 303 3 HOH HOH . 
F 5 HOH A 4 304 4 HOH HOH . 
F 5 HOH A 5 305 5 HOH HOH . 
F 5 HOH A 6 306 6 HOH HOH . 
F 5 HOH A 7 307 7 HOH HOH . 
F 5 HOH A 8 308 8 HOH HOH . 
F 5 HOH A 9 309 9 HOH HOH . 
F 5 HOH A 10 310 10 HOH HOH . 
F 5 HOH A 11 311 11 HOH HOH . 
F 5 HOH A 12 312 12 HOH HOH . 
F 5 HOH A 13 313 13 HOH HOH . 
F 5 HOH A 14 314 14 HOH HOH . 
F 5 HOH A 15 315 15 HOH HOH . 
F 5 HOH A 16 316 16 HOH HOH . 
F 5 HOH A 17 317 17 HOH HOH . 
F 5 HOH A 18 318 18 HOH HOH . 
F 5 HOH A 19 319 19 HOH HOH . 
F 5 HOH A 20 320 20 HOH HOH . 
F 5 HOH A 21 321 21 HOH HOH . 
F 5 HOH A 22 322 22 HOH HOH . 
F 5 HOH A 23 323 23 HOH HOH . 
F 5 HOH A 24 324 24 HOH HOH . 
F 5 HOH A 25 325 25 HOH HOH . 
F 5 HOH A 26 326 26 HOH HOH . 
F 5 HOH A 27 327 27 HOH HOH . 
F 5 HOH A 28 328 28 HOH HOH . 
F 5 HOH A 29 329 29 HOH HOH . 
F 5 HOH A 30 330 30 HOH HOH . 
F 5 HOH A 31 331 31 HOH HOH . 
F 5 HOH A 32 332 32 HOH HOH . 
F 5 HOH A 33 333 33 HOH HOH . 
F 5 HOH A 34 334 34 HOH HOH . 
F 5 HOH A 35 335 35 HOH HOH . 
F 5 HOH A 36 336 36 HOH HOH . 
F 5 HOH A 37 337 37 HOH HOH . 
F 5 HOH A 38 338 38 HOH HOH . 
F 5 HOH A 39 339 39 HOH HOH . 
F 5 HOH A 40 340 40 HOH HOH . 
F 5 HOH A 41 341 41 HOH HOH . 
F 5 HOH A 42 342 42 HOH HOH . 
F 5 HOH A 43 343 43 HOH HOH . 
F 5 HOH A 44 344 44 HOH HOH . 
F 5 HOH A 45 345 45 HOH HOH . 
F 5 HOH A 46 346 46 HOH HOH . 
F 5 HOH A 47 347 47 HOH HOH . 
F 5 HOH A 48 348 48 HOH HOH . 
F 5 HOH A 49 349 49 HOH HOH . 
F 5 HOH A 50 350 50 HOH HOH . 
F 5 HOH A 51 351 51 HOH HOH . 
F 5 HOH A 52 352 52 HOH HOH . 
F 5 HOH A 53 353 53 HOH HOH . 
F 5 HOH A 54 354 54 HOH HOH . 
F 5 HOH A 55 355 55 HOH HOH . 
F 5 HOH A 56 356 56 HOH HOH . 
F 5 HOH A 57 357 57 HOH HOH . 
F 5 HOH A 58 358 58 HOH HOH . 
F 5 HOH A 59 359 59 HOH HOH . 
F 5 HOH A 60 360 60 HOH HOH . 
F 5 HOH A 61 361 61 HOH HOH . 
F 5 HOH A 62 362 62 HOH HOH . 
F 5 HOH A 63 363 63 HOH HOH . 
F 5 HOH A 64 364 64 HOH HOH . 
F 5 HOH A 65 365 65 HOH HOH . 
F 5 HOH A 66 366 66 HOH HOH . 
F 5 HOH A 67 367 67 HOH HOH . 
F 5 HOH A 68 368 68 HOH HOH . 
F 5 HOH A 69 369 69 HOH HOH . 
F 5 HOH A 70 370 70 HOH HOH . 
F 5 HOH A 71 371 71 HOH HOH . 
F 5 HOH A 72 372 72 HOH HOH . 
F 5 HOH A 73 373 73 HOH HOH . 
F 5 HOH A 74 374 74 HOH HOH . 
F 5 HOH A 75 375 75 HOH HOH . 
F 5 HOH A 76 376 76 HOH HOH . 
F 5 HOH A 77 377 77 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 5HU . . . E 4 26.429 15.281 8.373 1 32.22 ? P 5HU 217 A 1 
HETATM 2 O OP1 5HU . . . E 4 27.421 14.84 9.555 1 34 ? OP1 5HU 217 A 1 
HETATM 3 O OP2 5HU . . . E 4 25.545 16.639 8.835 1 38.81 ? OP2 5HU 217 A 1 
HETATM 4 O OP3 5HU . . . E 4 27.272 15.644 6.985 1 31.85 ? OP3 5HU 217 A 1 
HETATM 5 O O5' 5HU . . . E 4 25.351 14.179 8.129 1 35.2 ? O5' 5HU 217 A 1 
HETATM 6 C C5' 5HU . . . E 4 25.344 13.054 7.345 1 32.67 ? C5' 5HU 217 A 1 
HETATM 7 C C4' 5HU . . . E 4 23.937 12.428 7.521 1 32.97 ? C4' 5HU 217 A 1 
HETATM 8 O O4' 5HU . . . E 4 23.831 11.013 7.711 1 31.33 ? O4' 5HU 217 A 1 
HETATM 9 C C3' 5HU . . . E 4 22.949 12.897 8.652 1 33.41 ? C3' 5HU 217 A 1 
HETATM 10 O O3' 5HU . . . E 4 21.484 13.119 8.436 1 34.13 ? O3' 5HU 217 A 1 
HETATM 11 C C2' 5HU . . . E 4 23.502 11.932 9.749 1 32.03 ? C2' 5HU 217 A 1 
HETATM 12 C C1' 5HU . . . E 4 23.551 10.629 9.042 1 31.64 ? C1' 5HU 217 A 1 
HETATM 13 N N1 5HU . . . E 4 24.582 9.632 9.383 1 28.25 ? N1 5HU 217 A 1 
HETATM 14 C C2 5HU . . . E 4 24.098 8.369 9.646 1 29.81 ? C2 5HU 217 A 1 
HETATM 15 O O2 5HU . . . E 4 22.83 8.136 9.576 1 27.16 ? O2 5HU 217 A 1 
HETATM 16 N N3 5HU . . . E 4 24.918 7.363 9.978 1 27.45 ? N3 5HU 217 A 1 
HETATM 17 C C4 5HU . . . E 4 26.248 7.575 10.059 1 29.28 ? C4 5HU 217 A 1 
HETATM 18 O O4 5HU . . . E 4 27.021 6.55 10.393 1 30.24 ? O4 5HU 217 A 1 
HETATM 19 C C5 5HU . . . E 4 26.801 8.851 9.795 1 27.83 ? C5 5HU 217 A 1 
HETATM 20 C C5A 5HU . . . E 4 28.283 9.041 9.89 1 28.72 ? C5A 5HU 217 A 1 
HETATM 21 C C6 5HU . . . E 4 25.923 9.88 9.454 1 29.51 ? C6 5HU 217 A 1 
HETATM 22 O O5B 5HU . . . E 4 28.639 8.853 8.917 1 27.79 ? O5B 5HU 217 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           304 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           22 
#