data_5B1I
#
_model_server_result.job_id            NHpTsPh7XHqaIPUWkaBzIw 
_model_server_result.datetime_utc      '2024-11-02 03:23:47' 
_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          5b1i 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"DA","auth_seq_id":401}' 
#
_entry.id    5B1I 
#
_exptl.entry_id    5B1I 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              378.338 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N-[(3-HYDROXY-2-METHYL-5-{[(TRIHYDROXYPHOSPHORANYL)OXY]METHYL}PYRIDIN-4-YL)METHYLENE]METHIONINE 
_entity.pdbx_number_of_molecules    8 
_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            5B1I 
_cell.length_a            165.94 
_cell.length_b            165.94 
_cell.length_c            259.49 
_cell.Z_PDB               64 
_cell.pdbx_unique_axis    ? 
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_symmetry.entry_id                 5B1I 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43 21 2' 
#
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 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,I,J,K,L,M,N 1 1 
C,D,O,P,Q,R,S,T 2 1 
E,F,U,V,W,X,Y,Z 3 1 
G,H,AA,BA,CA,DA,EA,FA 4 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
? 2 I N N 
? 2 L N N 
? 2 O N N 
? 2 R N N 
? 2 U N N 
? 2 X N N 
? 2 AA N N 
? 2 DA N N 
#
_chem_comp.formula           'C13 H19 N2 O7 P S' 
_chem_comp.formula_weight    378.338 
_chem_comp.id                AA5 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N-[(3-HYDROXY-2-METHYL-5-{[(TRIHYDROXYPHOSPHORANYL)OXY]METHYL}PYRIDIN-4-YL)METHYLENE]METHIONINE 
_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
N CA AA5 sing 1 n n 
N C4A AA5 doub 2 n n 
CA C AA5 sing 3 n n 
CA CB AA5 sing 4 n n 
CA HA AA5 sing 5 n n 
C O1 AA5 doub 6 n n 
C O2 AA5 sing 7 n n 
CB CG AA5 sing 8 n n 
CB HB1 AA5 sing 9 n n 
CB HB2 AA5 sing 10 n n 
CG SD AA5 sing 11 n n 
CG HG1 AA5 sing 12 n n 
CG HG2 AA5 sing 13 n n 
SD CE AA5 sing 14 n n 
CE HE1 AA5 sing 15 n n 
CE HE2 AA5 sing 16 n n 
CE HE3 AA5 sing 17 n n 
O2 HO2 AA5 sing 18 n n 
C2 C2A AA5 sing 19 n n 
C2 C3 AA5 doub 20 n y 
C2 N1 AA5 sing 21 n y 
C2A H2A1 AA5 sing 22 n n 
C2A H2A2 AA5 sing 23 n n 
C2A H2A3 AA5 sing 24 n n 
C3 C4 AA5 sing 25 n y 
C3 O3 AA5 sing 26 n n 
C4 C4A AA5 sing 27 n n 
C4 C5 AA5 doub 28 n y 
C4A H4A AA5 sing 29 n n 
C5 C5A AA5 sing 30 n n 
C5 C6 AA5 sing 31 n y 
C5A O4P AA5 sing 32 n n 
C5A H5A1 AA5 sing 33 n n 
C5A H5A2 AA5 sing 34 n n 
C6 N1 AA5 doub 35 n y 
C6 H6 AA5 sing 36 n n 
O1P P AA5 doub 37 n n 
O2P P AA5 sing 38 n n 
O2P H2P AA5 sing 39 n n 
O3 HO3 AA5 sing 40 n n 
O3P P AA5 sing 41 n n 
O3P H3P AA5 sing 42 n n 
O4P P AA5 sing 43 n n 
#
_atom_sites.entry_id                     5B1I 
_atom_sites.fract_transf_matrix[1][1]    0.006026 
_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]    0.006026 
_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]    0.003854 
_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 AA5 A 1 401 401 AA5 AA5 . 
J 3 SO4 A 1 402 409 SO4 SO4 . 
K 3 SO4 A 1 403 417 SO4 SO4 . 
L 2 AA5 B 1 401 402 AA5 AA5 . 
M 3 SO4 B 1 402 410 SO4 SO4 . 
N 3 SO4 B 1 403 418 SO4 SO4 . 
O 2 AA5 C 1 401 403 AA5 AA5 . 
P 3 SO4 C 1 402 411 SO4 SO4 . 
Q 3 SO4 C 1 403 419 SO4 SO4 . 
R 2 AA5 D 1 401 404 AA5 AA5 . 
S 3 SO4 D 1 402 413 SO4 SO4 . 
T 3 SO4 D 1 403 421 SO4 SO4 . 
U 2 AA5 E 1 401 405 AA5 AA5 . 
V 3 SO4 E 1 402 412 SO4 SO4 . 
W 3 SO4 E 1 403 420 SO4 SO4 . 
X 2 AA5 F 1 401 406 AA5 AA5 . 
Y 3 SO4 F 1 402 414 SO4 SO4 . 
Z 3 SO4 F 1 403 422 SO4 SO4 . 
AA 2 AA5 G 1 401 407 AA5 AA5 . 
BA 3 SO4 G 1 402 415 SO4 SO4 . 
CA 3 SO4 G 1 403 423 SO4 SO4 . 
DA 2 AA5 H 1 401 408 AA5 AA5 . 
EA 3 SO4 H 1 402 416 SO4 SO4 . 
FA 3 SO4 H 1 403 424 SO4 SO4 . 
#
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 N AA5 . . . DA 2 1.812 42.694 -67.082 1 88.23 ? N AA5 401 H 1 
HETATM 2 C CA AA5 . . . DA 2 0.63 41.83 -67.059 1 88.35 ? CA AA5 401 H 1 
HETATM 3 C C AA5 . . . DA 2 1.112 40.412 -67.437 1 88.7 ? C AA5 401 H 1 
HETATM 4 O O1 AA5 . . . DA 2 2.321 40.222 -67.813 1 88.22 ? O1 AA5 401 H 1 
HETATM 5 C CB AA5 . . . DA 2 -0.465 42.352 -68.057 1 88.34 ? CB AA5 401 H 1 
HETATM 6 C CG AA5 . . . DA 2 0.109 42.58 -69.482 1 88.99 ? CG AA5 401 H 1 
HETATM 7 S SD AA5 . . . DA 2 -1.219 42.821 -70.709 1 87.94 ? SD AA5 401 H 1 
HETATM 8 C CE AA5 . . . DA 2 -0.239 43.476 -72.086 1 87.48 ? CE AA5 401 H 1 
HETATM 9 O O2 AA5 . . . DA 2 0.332 39.412 -67.372 1 89.05 ? O2 AA5 401 H 1 
HETATM 10 C C2 AA5 . . . DA 2 5.521 44.85 -67.265 1 86.91 ? C2 AA5 401 H 1 
HETATM 11 C C2A AA5 . . . DA 2 6.847 44.217 -67.635 1 85 ? C2A AA5 401 H 1 
HETATM 12 C C3 AA5 . . . DA 2 4.347 44.07 -67.243 1 87.59 ? C3 AA5 401 H 1 
HETATM 13 C C4 AA5 . . . DA 2 3.086 44.717 -66.84 1 88.03 ? C4 AA5 401 H 1 
HETATM 14 C C4A AA5 . . . DA 2 1.806 43.946 -66.776 1 87.64 ? C4A AA5 401 H 1 
HETATM 15 C C5 AA5 . . . DA 2 3.114 46.128 -66.499 1 88.16 ? C5 AA5 401 H 1 
HETATM 16 C C5A AA5 . . . DA 2 1.843 46.903 -66.109 1 88.78 ? C5A AA5 401 H 1 
HETATM 17 C C6 AA5 . . . DA 2 4.345 46.798 -66.566 1 87.79 ? C6 AA5 401 H 1 
HETATM 18 N N1 AA5 . . . DA 2 5.475 46.153 -66.936 1 87.42 ? N1 AA5 401 H 1 
HETATM 19 O O1P AA5 . . . DA 2 -0.712 45.327 -65.687 1 88.15 ? O1P AA5 401 H 1 
HETATM 20 O O2P AA5 . . . DA 2 -0.736 46.343 -63.31 1 86.86 ? O2P AA5 401 H 1 
HETATM 21 O O3 AA5 . . . DA 2 4.4 42.749 -67.624 1 87.31 ? O3 AA5 401 H 1 
HETATM 22 O O3P AA5 . . . DA 2 -0.754 47.924 -65.321 1 86.81 ? O3P AA5 401 H 1 
HETATM 23 O O4P AA5 . . . DA 2 1.39 46.568 -64.772 1 88.07 ? O4P AA5 401 H 1 
HETATM 24 P P AA5 . . . DA 2 -0.199 46.555 -64.769 1 87.69 ? P AA5 401 H 1 
#
_model_server_stats.io_time_ms              66 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    20 
_model_server_stats.query_time_ms           326 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           24 
#