data_3G1F
#
_model_server_result.job_id            eDj2Yy3vmUsW5Eaa3eUQjw 
_model_server_result.datetime_utc      '2024-11-15 07:53:31' 
_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          3g1f 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"N","auth_seq_id":229}' 
#
_entry.id    3G1F 
#
_exptl.entry_id    3G1F 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              370.207 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5,6-dihydroorotidine 5'-monophosphate" 
_entity.pdbx_number_of_molecules    13 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          91.49 
_cell.angle_gamma         90 
_cell.entry_id            3G1F 
_cell.length_a            147.611 
_cell.length_b            101.708 
_cell.length_c            192.081 
_cell.Z_PDB               52 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3G1F 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 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 
PISA dimeric 2 author_and_software_defined_assembly 3 
PISA dimeric 2 author_and_software_defined_assembly 4 
PISA dimeric 2 author_and_software_defined_assembly 5 
PISA dimeric 2 author_and_software_defined_assembly 6 
PISA dimeric 2 author_and_software_defined_assembly 7 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,N,O,AA,BA 1 1 
C,D,P,Q,CA,DA 2 1 
E,F,R,S,EA,FA 3 1 
G,H,T,U,GA 4 1 
I,J,V,W,HA,IA 5 1 
K,L,X,Y 6 1 
M,Z,JA 7 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_455 -x-1,y,-z -1 0 0 0 1 0 0 0 -1 -147.611 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 N N N 
? 2 O N N 
? 2 P N N 
? 2 Q N N 
? 2 R N N 
? 2 S N N 
? 2 T N N 
? 2 U N N 
? 2 V N N 
? 2 W N N 
? 2 X N N 
? 2 Y N N 
? 2 Z N N 
#
_chem_comp.formula           'C10 H15 N2 O11 P' 
_chem_comp.formula_weight    370.207 
_chem_comp.id                2OM 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "5,6-dihydroorotidine 5'-monophosphate" 
_chem_comp.type              'rna 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 O5' 2OM sing 1 n n 
O5' C5' 2OM sing 2 n n 
C5' C4' 2OM sing 3 n n 
C5' H5' 2OM sing 4 n n 
C5' "H5'A" 2OM sing 5 n n 
C3' C4' 2OM sing 6 n n 
C4' O4' 2OM sing 7 n n 
C4' H4' 2OM sing 8 n n 
O4' C1' 2OM sing 9 n n 
O3' C3' 2OM sing 10 n n 
C3' C2' 2OM sing 11 n n 
C3' H3' 2OM sing 12 n n 
O3' HO3' 2OM sing 13 n n 
C2' O2' 2OM sing 14 n n 
C2' C1' 2OM sing 15 n n 
C2' H2' 2OM sing 16 n n 
O2' HO2' 2OM sing 17 n n 
C1' N1 2OM sing 18 n n 
C1' H1' 2OM sing 19 n n 
N1 C2 2OM sing 20 n n 
N1 C6 2OM sing 21 n n 
O2 C2 2OM doub 22 n n 
C2 N3 2OM sing 23 n n 
N3 C4 2OM sing 24 n n 
N3 HN3 2OM sing 25 n n 
C5 C4 2OM sing 26 n n 
C4 O4 2OM doub 27 n n 
C6 C5 2OM sing 28 n n 
C5 H5 2OM sing 29 n n 
C5 H5A 2OM sing 30 n n 
C6 C7 2OM sing 31 n n 
C6 H6 2OM sing 32 n n 
OP1 P 2OM doub 33 n n 
OP3 P 2OM sing 34 n n 
P OP2 2OM sing 35 n n 
OP2 HOP2 2OM sing 36 n n 
OP3 HOP3 2OM sing 37 n n 
O71 C7 2OM doub 38 n n 
C7 O72 2OM sing 39 n n 
O72 HO72 2OM sing 40 n n 
#
_atom_sites.entry_id                     3G1F 
_atom_sites.fract_transf_matrix[1][1]    0.006775 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000177 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009832 
_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]    0.005208 
_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
N 2 2OM A 1 229 1 2OM 2OM . 
O 2 2OM B 1 229 2 2OM 2OM . 
P 2 2OM C 1 229 3 2OM 2OM . 
Q 2 2OM D 1 229 4 2OM 2OM . 
R 2 2OM E 1 229 5 2OM 2OM . 
S 2 2OM F 1 229 6 2OM 2OM . 
T 2 2OM G 1 229 7 2OM 2OM . 
U 2 2OM H 1 229 8 2OM 2OM . 
V 2 2OM I 1 229 9 2OM 2OM . 
W 2 2OM J 1 229 10 2OM 2OM . 
X 2 2OM K 1 229 11 2OM 2OM . 
Y 2 2OM L 1 229 12 2OM 2OM . 
Z 2 2OM M 1 229 13 2OM 2OM . 
AA 3 HOH A 1 230 3 HOH HOH . 
AA 3 HOH A 2 231 5 HOH HOH . 
AA 3 HOH A 3 232 10 HOH HOH . 
AA 3 HOH A 4 233 11 HOH HOH . 
AA 3 HOH A 5 234 37 HOH HOH . 
AA 3 HOH A 6 235 43 HOH HOH . 
AA 3 HOH A 7 236 51 HOH HOH . 
AA 3 HOH A 8 237 53 HOH HOH . 
AA 3 HOH A 9 238 54 HOH HOH . 
AA 3 HOH A 10 239 56 HOH HOH . 
AA 3 HOH A 11 240 57 HOH HOH . 
AA 3 HOH A 12 241 70 HOH HOH . 
AA 3 HOH A 13 242 71 HOH HOH . 
AA 3 HOH A 14 243 87 HOH HOH . 
AA 3 HOH A 15 244 96 HOH HOH . 
AA 3 HOH A 16 245 97 HOH HOH . 
AA 3 HOH A 17 246 203 HOH HOH . 
BA 3 HOH B 1 230 9 HOH HOH . 
BA 3 HOH B 2 231 12 HOH HOH . 
BA 3 HOH B 3 232 16 HOH HOH . 
BA 3 HOH B 4 233 20 HOH HOH . 
BA 3 HOH B 5 234 41 HOH HOH . 
BA 3 HOH B 6 235 64 HOH HOH . 
BA 3 HOH B 7 236 69 HOH HOH . 
BA 3 HOH B 8 237 93 HOH HOH . 
BA 3 HOH B 9 238 201 HOH HOH . 
CA 3 HOH C 1 230 13 HOH HOH . 
CA 3 HOH C 2 231 14 HOH HOH . 
CA 3 HOH C 3 232 22 HOH HOH . 
CA 3 HOH C 4 233 29 HOH HOH . 
CA 3 HOH C 5 234 61 HOH HOH . 
CA 3 HOH C 6 235 68 HOH HOH . 
CA 3 HOH C 7 236 72 HOH HOH . 
CA 3 HOH C 8 237 84 HOH HOH . 
CA 3 HOH C 9 238 204 HOH HOH . 
DA 3 HOH D 1 230 21 HOH HOH . 
DA 3 HOH D 2 231 23 HOH HOH . 
DA 3 HOH D 3 232 28 HOH HOH . 
DA 3 HOH D 4 233 30 HOH HOH . 
DA 3 HOH D 5 234 44 HOH HOH . 
DA 3 HOH D 6 235 60 HOH HOH . 
DA 3 HOH D 7 236 73 HOH HOH . 
DA 3 HOH D 8 237 75 HOH HOH . 
DA 3 HOH D 9 238 92 HOH HOH . 
DA 3 HOH D 10 239 95 HOH HOH . 
DA 3 HOH D 11 240 100 HOH HOH . 
EA 3 HOH E 1 230 24 HOH HOH . 
EA 3 HOH E 2 231 66 HOH HOH . 
FA 3 HOH F 1 230 40 HOH HOH . 
GA 3 HOH G 1 230 77 HOH HOH . 
GA 3 HOH G 2 231 205 HOH HOH . 
HA 3 HOH I 1 230 46 HOH HOH . 
HA 3 HOH I 2 231 50 HOH HOH . 
HA 3 HOH I 3 232 58 HOH HOH . 
HA 3 HOH I 4 233 81 HOH HOH . 
HA 3 HOH I 5 234 83 HOH HOH . 
HA 3 HOH I 6 235 206 HOH HOH . 
HA 3 HOH I 7 236 207 HOH HOH . 
IA 3 HOH J 1 230 34 HOH HOH . 
IA 3 HOH J 2 231 45 HOH HOH . 
IA 3 HOH J 3 232 52 HOH HOH . 
IA 3 HOH J 4 233 74 HOH HOH . 
IA 3 HOH J 5 234 80 HOH HOH . 
IA 3 HOH J 6 235 103 HOH HOH . 
JA 3 HOH M 1 230 18 HOH HOH . 
JA 3 HOH M 2 231 19 HOH HOH . 
JA 3 HOH M 3 232 32 HOH HOH . 
JA 3 HOH M 4 233 59 HOH HOH . 
JA 3 HOH M 5 234 65 HOH HOH . 
JA 3 HOH M 6 235 79 HOH HOH . 
JA 3 HOH M 7 236 104 HOH HOH . 
JA 3 HOH M 8 237 208 HOH HOH . 
JA 3 HOH M 9 238 209 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 O O5' 2OM . . . N 2 2.121 45.072 -19.881 1 57.68 ? O5' 2OM 229 A 1 
HETATM 2 C C5' 2OM . . . N 2 2.013 45.52 -21.212 1 59.17 ? C5' 2OM 229 A 1 
HETATM 3 C C4' 2OM . . . N 2 3.258 46.327 -21.597 1 61.87 ? C4' 2OM 229 A 1 
HETATM 4 O O4' 2OM . . . N 2 4.361 45.439 -22.015 1 63.07 ? O4' 2OM 229 A 1 
HETATM 5 C C3' 2OM . . . N 2 2.96 47.242 -22.783 1 61.34 ? C3' 2OM 229 A 1 
HETATM 6 O O3' 2OM . . . N 2 3.659 48.47 -22.637 1 61.12 ? O3' 2OM 229 A 1 
HETATM 7 C C2' 2OM . . . N 2 3.427 46.415 -23.971 1 61.64 ? C2' 2OM 229 A 1 
HETATM 8 O O2' 2OM . . . N 2 3.66 47.223 -25.106 1 59.4 ? O2' 2OM 229 A 1 
HETATM 9 C C1' 2OM . . . N 2 4.688 45.742 -23.412 1 62.97 ? C1' 2OM 229 A 1 
HETATM 10 N N1 2OM . . . N 2 5.048 44.502 -24.184 1 64.14 ? N1 2OM 229 A 1 
HETATM 11 C C2 2OM . . . N 2 4.313 43.338 -24.072 1 63.95 ? C2 2OM 229 A 1 
HETATM 12 N N3 2OM . . . N 2 4.533 42.28 -24.878 1 65.84 ? N3 2OM 229 A 1 
HETATM 13 C C4 2OM . . . N 2 5.578 42.223 -25.735 1 66.27 ? C4 2OM 229 A 1 
HETATM 14 C C5 2OM . . . N 2 6.283 43.484 -26.181 1 66.45 ? C5 2OM 229 A 1 
HETATM 15 C C6 2OM . . . N 2 6.237 44.586 -25.091 1 66.44 ? C6 2OM 229 A 1 
HETATM 16 P P 2OM . . . N 2 0.642 44.746 -19.345 1 49.7 ? P 2OM 229 A 1 
HETATM 17 O O2 2OM . . . N 2 3.44 43.236 -23.235 1 63.57 ? O2 2OM 229 A 1 
HETATM 18 O O4 2OM . . . N 2 5.945 41.153 -26.16 1 66.36 ? O4 2OM 229 A 1 
HETATM 19 O OP2 2OM . . . N 2 -0.035 43.624 -20.256 1 54.74 ? OP2 2OM 229 A 1 
HETATM 20 O OP3 2OM . . . N 2 0.767 44.184 -17.86 1 57.36 ? OP3 2OM 229 A 1 
HETATM 21 O OP1 2OM . . . N 2 -0.185 45.959 -19.33 1 54.72 ? OP1 2OM 229 A 1 
HETATM 22 C C7 2OM . . . N 2 7.516 44.547 -24.318 1 68.13 ? C7 2OM 229 A 1 
HETATM 23 O O71 2OM . . . N 2 7.553 44.074 -23.201 1 70.76 ? O71 2OM 229 A 1 
HETATM 24 O O72 2OM . . . N 2 8.64 45.048 -24.866 1 68.44 ? O72 2OM 229 A 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           43 
_model_server_stats.create_model_time_ms    27 
_model_server_stats.query_time_ms           347 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           24 
#