data_5IRW
#
_model_server_result.job_id            w_Cp_J-ydmKhfsnKYrNZtQ 
_model_server_result.datetime_utc      '2024-11-15 16:26:49' 
_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          5irw 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":202}' 
#
_entry.id    5IRW 
#
_exptl.entry_id    5IRW 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              398.497 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1-desthiobiotinylpyrene 
_entity.pdbx_number_of_molecules    4 
_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            5IRW 
_cell.length_a            58.97 
_cell.length_b            81.52 
_cell.length_c            107.78 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5IRW 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               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,M,N,O,P 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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
? 3 F N N 
? 3 H N N 
? 3 J N N 
? 3 L 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 4 A CYS 4 1_555 A SG CYS 83 A CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? 
disulf ? disulf2 B SG CYS 4 B CYS 4 1_555 B SG CYS 83 B CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf3 C SG CYS 4 C CYS 4 1_555 C SG CYS 83 C CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.993 ? 
disulf ? disulf4 D SG CYS 4 D CYS 4 1_555 D SG CYS 83 D CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
covale ? covale1 A ND2 ASN 17 A ASN 17 1_555 E C1 NAG . A NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? 
covale ? covale2 B ND2 ASN 17 B ASN 17 1_555 G C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? 
covale ? covale3 C ND2 ASN 17 C ASN 17 1_555 I C1 NAG . C NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.477 ? 
covale ? covale4 D ND2 ASN 17 D ASN 17 1_555 K C1 NAG . D NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? 
#
_chem_comp.formula           'C26 H26 N2 O2' 
_chem_comp.formula_weight    398.497 
_chem_comp.id                D9P 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1-desthiobiotinylpyrene 
_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
C5 C6 D9P sing 83 n n 
C5 N1 D9P sing 84 n n 
C5 C4 D9P sing 85 n n 
N1 C3 D9P sing 86 n n 
C4 C2 D9P sing 87 n n 
C4 N2 D9P sing 88 n n 
C24 C25 D9P doub 89 n y 
C24 C19 D9P sing 90 n y 
C3 O3 D9P doub 91 n n 
C3 N2 D9P sing 92 n n 
C25 C26 D9P sing 93 n y 
C18 C19 D9P doub 94 n y 
C18 C17 D9P sing 95 n y 
C2 C7 D9P sing 96 n n 
C19 C20 D9P sing 97 n y 
C7 C8 D9P sing 98 n n 
C17 C16 D9P doub 99 n y 
C26 C21 D9P doub 100 n y 
O11 C11 D9P doub 101 n n 
C20 C21 D9P sing 102 n y 
C20 C15 D9P doub 103 n y 
C16 C15 D9P sing 104 n y 
C16 C1 D9P sing 105 n y 
C21 C22 D9P sing 106 n y 
C8 C9 D9P sing 107 n n 
C15 C14 D9P sing 108 n y 
C9 C10 D9P sing 109 n n 
C11 C1 D9P sing 110 n n 
C11 C10 D9P sing 111 n n 
C1 C12 D9P doub 112 n y 
C22 C23 D9P doub 113 n y 
C14 C23 D9P sing 114 n y 
C14 C13 D9P doub 115 n y 
C12 C13 D9P sing 116 n y 
C10 H1 D9P sing 117 n n 
C10 H2 D9P sing 118 n n 
C9 H3 D9P sing 119 n n 
C9 H4 D9P sing 120 n n 
C8 H5 D9P sing 121 n n 
C8 H6 D9P sing 122 n n 
C7 H7 D9P sing 123 n n 
C7 H8 D9P sing 124 n n 
C2 H9 D9P sing 125 n n 
C2 H10 D9P sing 126 n n 
C4 H11 D9P sing 127 n n 
C5 H12 D9P sing 128 n n 
C6 H13 D9P sing 129 n n 
C6 H14 D9P sing 130 n n 
C6 H15 D9P sing 131 n n 
N1 H16 D9P sing 132 n n 
N2 H17 D9P sing 133 n n 
C17 H18 D9P sing 134 n n 
C18 H19 D9P sing 135 n n 
C24 H20 D9P sing 136 n n 
C25 H21 D9P sing 137 n n 
C26 H22 D9P sing 138 n n 
C22 H23 D9P sing 139 n n 
C23 H24 D9P sing 140 n n 
C13 H25 D9P sing 141 n n 
C12 H26 D9P sing 142 n n 
#
_atom_sites.entry_id                     5IRW 
_atom_sites.fract_transf_matrix[1][1]    0.016958 
_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]    0.012267 
_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]    0.009278 
_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
E 2 NAG A 1 201 1 NAG NAG . 
F 3 D9P A 1 202 3 D9P D9P . 
G 2 NAG B 1 201 2 NAG NAG . 
H 3 D9P B 1 202 2 D9P D9P . 
I 2 NAG C 1 201 3 NAG NAG . 
J 3 D9P C 1 202 1 D9P D9P . 
K 2 NAG D 1 201 4 NAG NAG . 
L 3 D9P D 1 202 4 D9P D9P . 
M 4 HOH A 1 301 114 HOH HOH . 
M 4 HOH A 2 302 37 HOH HOH . 
M 4 HOH A 3 303 58 HOH HOH . 
M 4 HOH A 4 304 89 HOH HOH . 
M 4 HOH A 5 305 6 HOH HOH . 
M 4 HOH A 6 306 13 HOH HOH . 
M 4 HOH A 7 307 15 HOH HOH . 
M 4 HOH A 8 308 65 HOH HOH . 
M 4 HOH A 9 309 49 HOH HOH . 
M 4 HOH A 10 310 5 HOH HOH . 
M 4 HOH A 11 311 44 HOH HOH . 
M 4 HOH A 12 312 94 HOH HOH . 
M 4 HOH A 13 313 81 HOH HOH . 
M 4 HOH A 14 314 18 HOH HOH . 
M 4 HOH A 15 315 74 HOH HOH . 
M 4 HOH A 16 316 76 HOH HOH . 
M 4 HOH A 17 317 23 HOH HOH . 
M 4 HOH A 18 318 35 HOH HOH . 
M 4 HOH A 19 319 14 HOH HOH . 
M 4 HOH A 20 320 33 HOH HOH . 
M 4 HOH A 21 321 95 HOH HOH . 
M 4 HOH A 22 322 53 HOH HOH . 
M 4 HOH A 23 323 36 HOH HOH . 
M 4 HOH A 24 324 73 HOH HOH . 
M 4 HOH A 25 325 47 HOH HOH . 
M 4 HOH A 26 326 41 HOH HOH . 
M 4 HOH A 27 327 50 HOH HOH . 
M 4 HOH A 28 328 115 HOH HOH . 
M 4 HOH A 29 329 34 HOH HOH . 
N 4 HOH B 1 301 112 HOH HOH . 
N 4 HOH B 2 302 82 HOH HOH . 
N 4 HOH B 3 303 10 HOH HOH . 
N 4 HOH B 4 304 91 HOH HOH . 
N 4 HOH B 5 305 100 HOH HOH . 
N 4 HOH B 6 306 87 HOH HOH . 
N 4 HOH B 7 307 113 HOH HOH . 
N 4 HOH B 8 308 8 HOH HOH . 
N 4 HOH B 9 309 70 HOH HOH . 
N 4 HOH B 10 310 55 HOH HOH . 
N 4 HOH B 11 311 24 HOH HOH . 
N 4 HOH B 12 312 20 HOH HOH . 
N 4 HOH B 13 313 30 HOH HOH . 
N 4 HOH B 14 314 84 HOH HOH . 
N 4 HOH B 15 315 63 HOH HOH . 
N 4 HOH B 16 316 12 HOH HOH . 
N 4 HOH B 17 317 2 HOH HOH . 
N 4 HOH B 18 318 69 HOH HOH . 
N 4 HOH B 19 319 46 HOH HOH . 
N 4 HOH B 20 320 83 HOH HOH . 
O 4 HOH C 1 301 72 HOH HOH . 
O 4 HOH C 2 302 96 HOH HOH . 
O 4 HOH C 3 303 54 HOH HOH . 
O 4 HOH C 4 304 109 HOH HOH . 
O 4 HOH C 5 305 19 HOH HOH . 
O 4 HOH C 6 306 59 HOH HOH . 
O 4 HOH C 7 307 108 HOH HOH . 
O 4 HOH C 8 308 90 HOH HOH . 
O 4 HOH C 9 309 27 HOH HOH . 
O 4 HOH C 10 310 80 HOH HOH . 
O 4 HOH C 11 311 78 HOH HOH . 
O 4 HOH C 12 312 17 HOH HOH . 
O 4 HOH C 13 313 51 HOH HOH . 
O 4 HOH C 14 314 88 HOH HOH . 
O 4 HOH C 15 315 3 HOH HOH . 
O 4 HOH C 16 316 28 HOH HOH . 
O 4 HOH C 17 317 71 HOH HOH . 
O 4 HOH C 18 318 66 HOH HOH . 
O 4 HOH C 19 319 56 HOH HOH . 
O 4 HOH C 20 320 45 HOH HOH . 
O 4 HOH C 21 321 64 HOH HOH . 
O 4 HOH C 22 322 29 HOH HOH . 
O 4 HOH C 23 323 77 HOH HOH . 
O 4 HOH C 24 324 104 HOH HOH . 
O 4 HOH C 25 325 42 HOH HOH . 
O 4 HOH C 26 326 98 HOH HOH . 
O 4 HOH C 27 327 97 HOH HOH . 
O 4 HOH C 28 328 67 HOH HOH . 
O 4 HOH C 29 329 52 HOH HOH . 
P 4 HOH D 1 301 25 HOH HOH . 
P 4 HOH D 2 302 103 HOH HOH . 
P 4 HOH D 3 303 4 HOH HOH . 
P 4 HOH D 4 304 62 HOH HOH . 
P 4 HOH D 5 305 86 HOH HOH . 
P 4 HOH D 6 306 48 HOH HOH . 
P 4 HOH D 7 307 92 HOH HOH . 
P 4 HOH D 8 308 7 HOH HOH . 
P 4 HOH D 9 309 57 HOH HOH . 
P 4 HOH D 10 310 106 HOH HOH . 
P 4 HOH D 11 311 39 HOH HOH . 
P 4 HOH D 12 312 107 HOH HOH . 
P 4 HOH D 13 313 79 HOH HOH . 
P 4 HOH D 14 314 38 HOH HOH . 
P 4 HOH D 15 315 61 HOH HOH . 
P 4 HOH D 16 316 11 HOH HOH . 
P 4 HOH D 17 317 68 HOH HOH . 
P 4 HOH D 18 318 21 HOH HOH . 
P 4 HOH D 19 319 101 HOH HOH . 
P 4 HOH D 20 320 32 HOH HOH . 
P 4 HOH D 21 321 60 HOH HOH . 
P 4 HOH D 22 322 31 HOH HOH . 
P 4 HOH D 23 323 102 HOH HOH . 
P 4 HOH D 24 324 75 HOH HOH . 
P 4 HOH D 25 325 9 HOH HOH . 
P 4 HOH D 26 326 43 HOH HOH . 
P 4 HOH D 27 327 22 HOH HOH . 
P 4 HOH D 28 328 105 HOH HOH . 
P 4 HOH D 29 329 85 HOH HOH . 
P 4 HOH D 30 330 16 HOH HOH . 
P 4 HOH D 31 331 40 HOH HOH . 
P 4 HOH D 32 332 26 HOH HOH . 
P 4 HOH D 33 333 1 HOH HOH . 
P 4 HOH D 34 334 99 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 O11 D9P . . . L 3 27.972 22.057 16.199 1 56.65 ? O11 D9P 202 D 1 
HETATM 2 C C11 D9P . . . L 3 26.962 22.066 16.922 1 54.78 ? C11 D9P 202 D 1 
HETATM 3 C C10 D9P . . . L 3 27.14 22.174 18.423 1 53.71 ? C10 D9P 202 D 1 
HETATM 4 C C9 D9P . . . L 3 27.62 20.823 18.921 1 66.37 ? C9 D9P 202 D 1 
HETATM 5 C C8 D9P . . . L 3 29.115 20.633 19.086 1 64.53 ? C8 D9P 202 D 1 
HETATM 6 C C7 D9P . . . L 3 29.6 19.448 18.311 1 51.47 ? C7 D9P 202 D 1 
HETATM 7 C C2 D9P . . . L 3 29.714 18.15 19.104 1 46.38 ? C2 D9P 202 D 1 
HETATM 8 C C4 D9P . . . L 3 30.976 17.344 18.747 1 46.13 ? C4 D9P 202 D 1 
HETATM 9 C C5 D9P . . . L 3 30.855 15.821 18.911 1 46.06 ? C5 D9P 202 D 1 
HETATM 10 C C6 D9P . . . L 3 29.713 15.349 19.795 1 45.68 ? C6 D9P 202 D 1 
HETATM 11 N N1 D9P . . . L 3 32.154 15.515 19.491 1 45.11 ? N1 D9P 202 D 1 
HETATM 12 N N2 D9P . . . L 3 32.035 17.674 19.683 1 45.98 ? N2 D9P 202 D 1 
HETATM 13 C C3 D9P . . . L 3 32.773 16.602 20.012 1 47.69 ? C3 D9P 202 D 1 
HETATM 14 O O3 D9P . . . L 3 33.84 16.629 20.648 1 44.66 ? O3 D9P 202 D 1 
HETATM 15 C C1 D9P . . . L 3 25.59 22.192 16.28 0.7 56.93 ? C1 D9P 202 D 1 
HETATM 16 C C16 D9P . . . L 3 25.329 21.768 14.991 0.7 66.35 ? C16 D9P 202 D 1 
HETATM 17 C C15 D9P . . . L 3 24.007 22.037 14.446 0.7 72.58 ? C15 D9P 202 D 1 
HETATM 18 C C17 D9P . . . L 3 26.149 21.051 14.175 0.7 65.26 ? C17 D9P 202 D 1 
HETATM 19 C C18 D9P . . . L 3 25.723 20.648 12.886 0.7 81.65 ? C18 D9P 202 D 1 
HETATM 20 C C19 D9P . . . L 3 24.485 20.945 12.328 0.7 82.87 ? C19 D9P 202 D 1 
HETATM 21 C C20 D9P . . . L 3 23.591 21.645 13.14 0.7 78.92 ? C20 D9P 202 D 1 
HETATM 22 C C24 D9P . . . L 3 24.127 20.552 11.037 0.7 81.08 ? C24 D9P 202 D 1 
HETATM 23 C C25 D9P . . . L 3 22.87 20.837 10.543 0.7 80.83 ? C25 D9P 202 D 1 
HETATM 24 C C26 D9P . . . L 3 21.937 21.511 11.343 0.7 77.25 ? C26 D9P 202 D 1 
HETATM 25 C C21 D9P . . . L 3 22.3 21.939 12.63 0.7 80.84 ? C21 D9P 202 D 1 
HETATM 26 C C22 D9P . . . L 3 21.393 22.649 13.426 0.7 78.47 ? C22 D9P 202 D 1 
HETATM 27 C C23 D9P . . . L 3 21.77 23.041 14.664 0.7 73.25 ? C23 D9P 202 D 1 
HETATM 28 C C14 D9P . . . L 3 23.052 22.745 15.182 0.7 70.76 ? C14 D9P 202 D 1 
HETATM 29 C C13 D9P . . . L 3 23.399 23.159 16.461 0.7 73.94 ? C13 D9P 202 D 1 
HETATM 30 C C12 D9P . . . L 3 24.627 22.877 17.01 1 68.88 ? C12 D9P 202 D 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           267 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           30 
#