data_1JDZ
#
_model_server_result.job_id            NKfeUtQ0_FAea9vdKTIbgw 
_model_server_result.datetime_utc      '2024-10-12 06:24:48' 
_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          1jdz 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":270}' 
#
_entry.id    1JDZ 
#
_exptl.entry_id    1JDZ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              268.226 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'FORMYCIN B' 
_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            1JDZ 
_cell.length_a            102.6 
_cell.length_b            176.9 
_cell.length_c            87.3 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1JDZ 
_symmetry.cell_setting             orthorhombic 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
_pdbx_struct_assembly.method_details        PISA,PQS 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L 
_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' 3_655 -x+1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 102.6 0 43.65 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 E N N 
? 3 G N N 
? 3 I N 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
disulf ? disulf1 A SG CYS 125 A CYS 125 1_555 C SG CYS 125 C CYS 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf2 B SG CYS 125 B CYS 125 1_555 B SG CYS 125 B CYS 125 3_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? 
#
_chem_comp.formula           'C10 H12 N4 O5' 
_chem_comp.formula_weight    268.226 
_chem_comp.id                FMB 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'FORMYCIN B' 
_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 FMB sing 83 n y 
N1 C6 FMB sing 84 n y 
N1 HN1 FMB sing 85 n n 
C2 N3 FMB doub 86 n y 
C2 H2 FMB sing 87 n n 
N3 C4 FMB sing 88 n y 
C4 C5 FMB doub 89 n y 
C4 C9 FMB sing 90 n y 
C5 C6 FMB sing 91 n y 
C5 N7 FMB sing 92 n y 
C6 O6 FMB doub 93 n n 
N7 N8 FMB sing 94 n y 
N7 HN7 FMB sing 95 n n 
N8 C9 FMB doub 96 n y 
C9 C1' FMB sing 97 n n 
C1' C2' FMB sing 98 n n 
C1' O4' FMB sing 99 n n 
C1' H1' FMB sing 100 n n 
C2' O2' FMB sing 101 n n 
C2' C3' FMB sing 102 n n 
C2' H2' FMB sing 103 n n 
O2' HO2 FMB sing 104 n n 
C3' O3' FMB sing 105 n n 
C3' C4' FMB sing 106 n n 
C3' H3' FMB sing 107 n n 
O3' HO3 FMB sing 108 n n 
C4' O4' FMB sing 109 n n 
C4' C5' FMB sing 110 n n 
C4' H4' FMB sing 111 n n 
C5' O5' FMB sing 112 n n 
C5' "H5'1" FMB sing 113 n n 
C5' "H5'2" FMB sing 114 n n 
O5' HO5 FMB sing 115 n n 
#
_atom_sites.entry_id                     1JDZ 
_atom_sites.fract_transf_matrix[1][1]    0.009747 
_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]    0.005653 
_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]    0.011455 
_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
D 2 SO4 A 1 250 250 SO4 SO4 . 
E 3 FMB A 1 270 270 FMB FMB . 
F 2 SO4 B 1 255 255 SO4 SO4 . 
G 3 FMB B 1 275 275 FMB FMB . 
H 2 SO4 C 1 260 260 SO4 SO4 . 
I 3 FMB C 1 280 280 FMB FMB . 
J 4 HOH A 1 271 1 HOH HOH . 
J 4 HOH A 2 272 2 HOH HOH . 
J 4 HOH A 3 273 4 HOH HOH . 
J 4 HOH A 4 274 6 HOH HOH . 
J 4 HOH A 5 275 7 HOH HOH . 
J 4 HOH A 6 276 8 HOH HOH . 
J 4 HOH A 7 277 12 HOH HOH . 
J 4 HOH A 8 278 13 HOH HOH . 
J 4 HOH A 9 279 16 HOH HOH . 
J 4 HOH A 10 280 17 HOH HOH . 
J 4 HOH A 11 281 22 HOH HOH . 
J 4 HOH A 12 282 26 HOH HOH . 
J 4 HOH A 13 283 29 HOH HOH . 
J 4 HOH A 14 284 30 HOH HOH . 
J 4 HOH A 15 285 35 HOH HOH . 
J 4 HOH A 16 286 37 HOH HOH . 
J 4 HOH A 17 287 38 HOH HOH . 
J 4 HOH A 18 288 39 HOH HOH . 
J 4 HOH A 19 289 46 HOH HOH . 
J 4 HOH A 20 290 50 HOH HOH . 
J 4 HOH A 21 291 52 HOH HOH . 
J 4 HOH A 22 292 54 HOH HOH . 
J 4 HOH A 23 293 56 HOH HOH . 
J 4 HOH A 24 294 57 HOH HOH . 
J 4 HOH A 25 295 63 HOH HOH . 
J 4 HOH A 26 296 64 HOH HOH . 
J 4 HOH A 27 297 66 HOH HOH . 
J 4 HOH A 28 298 70 HOH HOH . 
J 4 HOH A 29 299 72 HOH HOH . 
J 4 HOH A 30 300 78 HOH HOH . 
J 4 HOH A 31 301 79 HOH HOH . 
J 4 HOH A 32 302 85 HOH HOH . 
J 4 HOH A 33 303 87 HOH HOH . 
J 4 HOH A 34 304 91 HOH HOH . 
J 4 HOH A 35 305 96 HOH HOH . 
J 4 HOH A 36 306 98 HOH HOH . 
J 4 HOH A 37 307 102 HOH HOH . 
J 4 HOH A 38 308 103 HOH HOH . 
J 4 HOH A 39 309 105 HOH HOH . 
J 4 HOH A 40 310 106 HOH HOH . 
J 4 HOH A 41 311 112 HOH HOH . 
J 4 HOH A 42 312 120 HOH HOH . 
J 4 HOH A 43 313 121 HOH HOH . 
J 4 HOH A 44 314 122 HOH HOH . 
J 4 HOH A 45 315 123 HOH HOH . 
J 4 HOH A 46 316 124 HOH HOH . 
J 4 HOH A 47 317 125 HOH HOH . 
J 4 HOH A 48 318 127 HOH HOH . 
J 4 HOH A 49 319 130 HOH HOH . 
J 4 HOH A 50 320 138 HOH HOH . 
J 4 HOH A 51 321 140 HOH HOH . 
J 4 HOH A 52 322 145 HOH HOH . 
K 4 HOH B 1 276 11 HOH HOH . 
K 4 HOH B 2 277 14 HOH HOH . 
K 4 HOH B 3 278 19 HOH HOH . 
K 4 HOH B 4 279 20 HOH HOH . 
K 4 HOH B 5 280 23 HOH HOH . 
K 4 HOH B 6 281 24 HOH HOH . 
K 4 HOH B 7 282 31 HOH HOH . 
K 4 HOH B 8 283 32 HOH HOH . 
K 4 HOH B 9 284 34 HOH HOH . 
K 4 HOH B 10 285 36 HOH HOH . 
K 4 HOH B 11 286 41 HOH HOH . 
K 4 HOH B 12 287 42 HOH HOH . 
K 4 HOH B 13 288 48 HOH HOH . 
K 4 HOH B 14 289 49 HOH HOH . 
K 4 HOH B 15 290 51 HOH HOH . 
K 4 HOH B 16 291 59 HOH HOH . 
K 4 HOH B 17 292 60 HOH HOH . 
K 4 HOH B 18 293 61 HOH HOH . 
K 4 HOH B 19 294 62 HOH HOH . 
K 4 HOH B 20 295 68 HOH HOH . 
K 4 HOH B 21 296 71 HOH HOH . 
K 4 HOH B 22 297 73 HOH HOH . 
K 4 HOH B 23 298 74 HOH HOH . 
K 4 HOH B 24 299 75 HOH HOH . 
K 4 HOH B 25 300 76 HOH HOH . 
K 4 HOH B 26 301 77 HOH HOH . 
K 4 HOH B 27 302 80 HOH HOH . 
K 4 HOH B 28 303 81 HOH HOH . 
K 4 HOH B 29 304 82 HOH HOH . 
K 4 HOH B 30 305 83 HOH HOH . 
K 4 HOH B 31 306 84 HOH HOH . 
K 4 HOH B 32 307 86 HOH HOH . 
K 4 HOH B 33 308 90 HOH HOH . 
K 4 HOH B 34 309 93 HOH HOH . 
K 4 HOH B 35 310 99 HOH HOH . 
K 4 HOH B 36 311 101 HOH HOH . 
K 4 HOH B 37 312 107 HOH HOH . 
K 4 HOH B 38 313 108 HOH HOH . 
K 4 HOH B 39 314 111 HOH HOH . 
K 4 HOH B 40 315 114 HOH HOH . 
K 4 HOH B 41 316 115 HOH HOH . 
K 4 HOH B 42 317 118 HOH HOH . 
K 4 HOH B 43 318 126 HOH HOH . 
K 4 HOH B 44 319 128 HOH HOH . 
K 4 HOH B 45 320 129 HOH HOH . 
K 4 HOH B 46 321 131 HOH HOH . 
K 4 HOH B 47 322 133 HOH HOH . 
K 4 HOH B 48 323 134 HOH HOH . 
K 4 HOH B 49 324 136 HOH HOH . 
K 4 HOH B 50 325 139 HOH HOH . 
K 4 HOH B 51 326 142 HOH HOH . 
K 4 HOH B 52 327 143 HOH HOH . 
L 4 HOH C 1 281 3 HOH HOH . 
L 4 HOH C 2 282 5 HOH HOH . 
L 4 HOH C 3 283 9 HOH HOH . 
L 4 HOH C 4 284 10 HOH HOH . 
L 4 HOH C 5 285 15 HOH HOH . 
L 4 HOH C 6 286 18 HOH HOH . 
L 4 HOH C 7 287 21 HOH HOH . 
L 4 HOH C 8 288 25 HOH HOH . 
L 4 HOH C 9 289 27 HOH HOH . 
L 4 HOH C 10 290 28 HOH HOH . 
L 4 HOH C 11 291 33 HOH HOH . 
L 4 HOH C 12 292 40 HOH HOH . 
L 4 HOH C 13 293 43 HOH HOH . 
L 4 HOH C 14 294 44 HOH HOH . 
L 4 HOH C 15 295 45 HOH HOH . 
L 4 HOH C 16 296 47 HOH HOH . 
L 4 HOH C 17 297 53 HOH HOH . 
L 4 HOH C 18 298 55 HOH HOH . 
L 4 HOH C 19 299 58 HOH HOH . 
L 4 HOH C 20 300 65 HOH HOH . 
L 4 HOH C 21 301 67 HOH HOH . 
L 4 HOH C 22 302 69 HOH HOH . 
L 4 HOH C 23 303 88 HOH HOH . 
L 4 HOH C 24 304 89 HOH HOH . 
L 4 HOH C 25 305 92 HOH HOH . 
L 4 HOH C 26 306 94 HOH HOH . 
L 4 HOH C 27 307 95 HOH HOH . 
L 4 HOH C 28 308 97 HOH HOH . 
L 4 HOH C 29 309 100 HOH HOH . 
L 4 HOH C 30 310 104 HOH HOH . 
L 4 HOH C 31 311 109 HOH HOH . 
L 4 HOH C 32 312 110 HOH HOH . 
L 4 HOH C 33 313 113 HOH HOH . 
L 4 HOH C 34 314 116 HOH HOH . 
L 4 HOH C 35 315 117 HOH HOH . 
L 4 HOH C 36 316 119 HOH HOH . 
L 4 HOH C 37 317 132 HOH HOH . 
L 4 HOH C 38 318 135 HOH HOH . 
L 4 HOH C 39 319 137 HOH HOH . 
L 4 HOH C 40 320 141 HOH HOH . 
L 4 HOH C 41 321 144 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 FMB . . . E 3 58.3 153.954 36.288 1 33.84 ? N1 FMB 270 A 1 
HETATM 2 C C2 FMB . . . E 3 58.801 155.097 35.659 1 33.87 ? C2 FMB 270 A 1 
HETATM 3 N N3 FMB . . . E 3 58.776 155.268 34.318 1 33.27 ? N3 FMB 270 A 1 
HETATM 4 C C4 FMB . . . E 3 58.206 154.205 33.658 1 33.61 ? C4 FMB 270 A 1 
HETATM 5 C C5 FMB . . . E 3 57.679 153.023 34.198 1 33.79 ? C5 FMB 270 A 1 
HETATM 6 C C6 FMB . . . E 3 57.71 152.847 35.615 1 33.66 ? C6 FMB 270 A 1 
HETATM 7 O O6 FMB . . . E 3 57.296 151.88 36.267 1 34.13 ? O6 FMB 270 A 1 
HETATM 8 N N7 FMB . . . E 3 57.193 152.189 33.203 1 33.26 ? N7 FMB 270 A 1 
HETATM 9 N N8 FMB . . . E 3 57.425 152.865 32.092 1 33.7 ? N8 FMB 270 A 1 
HETATM 10 C C9 FMB . . . E 3 58.041 154.103 32.303 1 33.15 ? C9 FMB 270 A 1 
HETATM 11 C C1' FMB . . . E 3 58.263 154.813 31 1 33.33 ? C1' FMB 270 A 1 
HETATM 12 C C2' FMB . . . E 3 57.706 154.125 29.756 1 32.93 ? C2' FMB 270 A 1 
HETATM 13 O O2' FMB . . . E 3 58.739 154.066 28.805 1 28.45 ? O2' FMB 270 A 1 
HETATM 14 C C3' FMB . . . E 3 56.481 154.971 29.349 1 32.35 ? C3' FMB 270 A 1 
HETATM 15 O O3' FMB . . . E 3 56.438 155.276 27.943 1 30.82 ? O3' FMB 270 A 1 
HETATM 16 C C4' FMB . . . E 3 56.556 156.257 30.17 1 33.84 ? C4' FMB 270 A 1 
HETATM 17 O O4' FMB . . . E 3 57.678 156.115 31.078 1 33.48 ? O4' FMB 270 A 1 
HETATM 18 C C5' FMB . . . E 3 55.287 156.542 30.991 1 37.41 ? C5' FMB 270 A 1 
HETATM 19 O O5' FMB . . . E 3 54.757 157.876 30.802 1 39.09 ? O5' FMB 270 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           263 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           19 
#