data_1C41
#
_model_server_result.job_id            yBFn_F_zJY-foS483V4MaQ 
_model_server_result.datetime_utc      '2024-11-22 02:10:45' 
_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          1c41 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":201}' 
#
_entry.id    1C41 
#
_exptl.entry_id    1C41 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              290.23 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            5-NITROSO-6-RIBITYL-AMINO-2,4(1H,3H)-PYRIMIDINEDIONE 
_entity.pdbx_number_of_molecules    10 
_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            1C41 
_cell.length_a            98.8 
_cell.length_b            124.7 
_cell.length_c            141.4 
_cell.Z_PDB               40 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1C41 
_symmetry.cell_setting             orthorhombic 
_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
PISA pentameric 5 author_and_software_defined_assembly 1 
PISA pentameric 5 author_and_software_defined_assembly 2 
PISA decameric 10 software_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,E,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,OA,PA 1 1 
F,G,H,I,J,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,QA,RA,SA 2 1 
A,B,C,D,E,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,OA,PA 3 1 
F,G,H,I,J,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,QA,RA,SA 3 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' 3_645 -x+1,y-1/2,-z+1/2 -1 0 0 0 1 0 0 0 -1 98.8 -62.35 70.7 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 M N N 
? 3 P N N 
? 3 T N N 
? 3 V N N 
? 3 Y N N 
? 3 BA N N 
? 3 DA N N 
? 3 GA N N 
? 3 KA N N 
? 3 NA N N 
#
_chem_comp.formula           'C9 H14 N4 O7' 
_chem_comp.formula_weight    290.23 
_chem_comp.id                LMZ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              5-NITROSO-6-RIBITYL-AMINO-2,4(1H,3H)-PYRIMIDINEDIONE 
_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 LMZ sing 194 n y 
N1 C6 LMZ sing 195 n y 
N1 HN1 LMZ sing 196 n n 
C2 N3 LMZ sing 197 n y 
C2 O2 LMZ doub 198 n n 
N3 C4 LMZ sing 199 n y 
N3 HN3 LMZ sing 200 n n 
C4 C5 LMZ sing 201 n y 
C4 O4 LMZ doub 202 n n 
C5 C6 LMZ doub 203 n y 
C5 N5 LMZ sing 204 n n 
C6 N7 LMZ sing 205 n n 
N7 C8 LMZ sing 206 n n 
N7 HN7 LMZ sing 207 n n 
C8 C9 LMZ sing 208 n n 
C8 H81 LMZ sing 209 n n 
C8 H82 LMZ sing 210 n n 
C9 O9 LMZ sing 211 n n 
C9 C10 LMZ sing 212 n n 
C9 H9 LMZ sing 213 n n 
O9 HO9 LMZ sing 214 n n 
C10 O10 LMZ sing 215 n n 
C10 C11 LMZ sing 216 n n 
C10 H10 LMZ sing 217 n n 
O10 HO10 LMZ sing 218 n n 
C11 O11 LMZ sing 219 n n 
C11 C12 LMZ sing 220 n n 
C11 H11 LMZ sing 221 n n 
O11 HO11 LMZ sing 222 n n 
C12 O12 LMZ sing 223 n n 
C12 H121 LMZ sing 224 n n 
C12 H122 LMZ sing 225 n n 
O12 HO12 LMZ sing 226 n n 
N5 O52 LMZ doub 227 n n 
#
_atom_sites.entry_id                     1C41 
_atom_sites.fract_transf_matrix[1][1]    0.010121 
_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]    0.008019 
_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]    0.007072 
_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
K 2 SO4 A 1 301 301 SO4 SO4 . 
L 2 SO4 A 1 404 404 SO4 SO4 . 
M 3 LMZ A 1 201 201 LMZ LMZ . 
N 2 SO4 B 1 302 302 SO4 SO4 . 
O 2 SO4 B 1 401 401 SO4 SO4 . 
P 3 LMZ B 1 202 202 LMZ LMZ . 
Q 2 SO4 C 1 303 303 SO4 SO4 . 
R 2 SO4 C 1 402 402 SO4 SO4 . 
S 2 SO4 C 1 410 410 SO4 SO4 . 
T 3 LMZ C 1 203 203 LMZ LMZ . 
U 2 SO4 D 1 304 304 SO4 SO4 . 
V 3 LMZ D 1 204 204 LMZ LMZ . 
W 2 SO4 E 1 305 305 SO4 SO4 . 
X 2 SO4 E 1 403 403 SO4 SO4 . 
Y 3 LMZ E 1 205 205 LMZ LMZ . 
Z 2 SO4 F 1 306 306 SO4 SO4 . 
AA 2 SO4 F 1 405 405 SO4 SO4 . 
BA 3 LMZ F 1 206 206 LMZ LMZ . 
CA 2 SO4 G 1 307 307 SO4 SO4 . 
DA 3 LMZ G 1 207 207 LMZ LMZ . 
EA 2 SO4 H 1 308 308 SO4 SO4 . 
FA 2 SO4 H 1 406 406 SO4 SO4 . 
GA 3 LMZ H 1 208 208 LMZ LMZ . 
HA 2 SO4 I 1 309 309 SO4 SO4 . 
IA 2 SO4 I 1 407 407 SO4 SO4 . 
JA 2 SO4 I 1 409 409 SO4 SO4 . 
KA 3 LMZ I 1 209 209 LMZ LMZ . 
LA 2 SO4 J 1 310 310 SO4 SO4 . 
MA 2 SO4 J 1 408 408 SO4 SO4 . 
NA 3 LMZ J 1 210 210 LMZ LMZ . 
OA 4 HOH B 1 502 502 HOH HOH . 
PA 4 HOH C 1 501 501 HOH HOH . 
PA 4 HOH C 2 503 503 HOH HOH . 
PA 4 HOH C 3 504 504 HOH HOH . 
PA 4 HOH C 4 505 505 HOH HOH . 
QA 4 HOH G 1 507 507 HOH HOH . 
RA 4 HOH I 1 508 508 HOH HOH . 
RA 4 HOH I 2 510 510 HOH HOH . 
RA 4 HOH I 3 511 511 HOH HOH . 
SA 4 HOH J 1 509 509 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 N N1 LMZ . . . M 3 8.651 15.393 67.087 1 23.33 ? N1 LMZ 201 A 1 
HETATM 2 C C2 LMZ . . . M 3 9.192 16.317 66.22 1 23.33 ? C2 LMZ 201 A 1 
HETATM 3 N N3 LMZ . . . M 3 10.52 16.225 65.99 1 23.33 ? N3 LMZ 201 A 1 
HETATM 4 C C4 LMZ . . . M 3 11.363 15.285 66.559 1 23.33 ? C4 LMZ 201 A 1 
HETATM 5 C C5 LMZ . . . M 3 10.743 14.294 67.513 1 23.33 ? C5 LMZ 201 A 1 
HETATM 6 C C6 LMZ . . . M 3 9.353 14.427 67.793 1 23.33 ? C6 LMZ 201 A 1 
HETATM 7 N N7 LMZ . . . M 3 8.649 13.69 68.717 1 23.33 ? N7 LMZ 201 A 1 
HETATM 8 C C8 LMZ . . . M 3 7.926 12.547 68.083 1 23.33 ? C8 LMZ 201 A 1 
HETATM 9 C C9 LMZ . . . M 3 6.35 12.718 68.076 1 23.33 ? C9 LMZ 201 A 1 
HETATM 10 O O9 LMZ . . . M 3 6.073 13.894 67.363 1 23.33 ? O9 LMZ 201 A 1 
HETATM 11 C C10 LMZ . . . M 3 5.388 12.68 69.338 1 23.33 ? C10 LMZ 201 A 1 
HETATM 12 O O10 LMZ . . . M 3 5.578 13.816 70.149 1 23.33 ? O10 LMZ 201 A 1 
HETATM 13 C C11 LMZ . . . M 3 5.097 11.341 70.244 1 23.33 ? C11 LMZ 201 A 1 
HETATM 14 O O11 LMZ . . . M 3 5.927 10.465 69.484 1 23.33 ? O11 LMZ 201 A 1 
HETATM 15 C C12 LMZ . . . M 3 3.771 10.477 70.286 1 23.33 ? C12 LMZ 201 A 1 
HETATM 16 O O12 LMZ . . . M 3 2.781 11.363 69.843 1 23.33 ? O12 LMZ 201 A 1 
HETATM 17 N N5 LMZ . . . M 3 11.625 13.354 68.129 1 23.33 ? N5 LMZ 201 A 1 
HETATM 18 O O52 LMZ . . . M 3 11.157 12.531 68.915 1 23.33 ? O52 LMZ 201 A 1 
HETATM 19 O O4 LMZ . . . M 3 12.693 15.373 66.176 1 23.33 ? O4 LMZ 201 A 1 
HETATM 20 O O2 LMZ . . . M 3 8.32 17.226 65.674 1 23.33 ? O2 LMZ 201 A 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    25 
_model_server_stats.query_time_ms           343 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           20 
#