data_4DVE
#
_model_server_result.job_id            GGvM8J5coQk_wfXQsYNgoQ 
_model_server_result.datetime_utc      '2024-11-22 21:56:58' 
_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          4dve 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":201}' 
#
_entry.id    4DVE 
#
_exptl.entry_id    4DVE 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              244.311 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            BIOTIN 
_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          91.07 
_cell.angle_gamma         90 
_cell.entry_id            4DVE 
_cell.length_a            89.825 
_cell.length_b            57.384 
_cell.length_c            166.865 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4DVE 
_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
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
PISA hexameric 6 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,D,E,F,G,M 1 1 
B,H,I,J,N 2 1 
C,K,L,O 3 1 
A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 4 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_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 89.825 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 D N N 
? 2 H N N 
? 2 K 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
covale ? covale1 A C ALA 10 A ALA 0 1_555 A N MSE 11 A MSE 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? 
covale ? covale2 A C MSE 11 A MSE 1 1_555 A N THR 12 A THR 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? 
covale ? covale3 A C PHE 25 A PHE 15 1_555 A N MSE 26 A MSE 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale4 A C MSE 26 A MSE 16 1_555 A N THR 27 A THR 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.344 ? 
covale ? covale5 A C ASN 52 A ASN 42 1_555 A N MSE 53 A MSE 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale6 A C MSE 53 A MSE 43 1_555 A N GLY 54 A GLY 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale7 A C ILE 55 A ILE 45 1_555 A N MSE 56 A MSE 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale8 A C MSE 56 A MSE 46 1_555 A N MSE 57 A MSE 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale9 A C MSE 57 A MSE 47 1_555 A N ALA 58 A ALA 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? 
covale ? covale10 B C ALA 10 B ALA 0 1_555 B N MSE 11 B MSE 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale11 B C MSE 11 B MSE 1 1_555 B N THR 12 B THR 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.317 ? 
covale ? covale12 B C PHE 25 B PHE 15 1_555 B N MSE 26 B MSE 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale13 B C MSE 26 B MSE 16 1_555 B N THR 27 B THR 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale14 B C ASN 52 B ASN 42 1_555 B N MSE 53 B MSE 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? 
covale ? covale15 B C MSE 53 B MSE 43 1_555 B N GLY 54 B GLY 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale16 B C ILE 55 B ILE 45 1_555 B N MSE 56 B MSE 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale17 B C MSE 56 B MSE 46 1_555 B N MSE 57 B MSE 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
covale ? covale18 B C MSE 57 B MSE 47 1_555 B N ALA 58 B ALA 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale19 C C MSE 11 C MSE 1 1_555 C N THR 12 C THR 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale20 C C PHE 25 C PHE 15 1_555 C N MSE 26 C MSE 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale21 C C MSE 26 C MSE 16 1_555 C N THR 27 C THR 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale22 C C ASN 52 C ASN 42 1_555 C N MSE 53 C MSE 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale23 C C MSE 53 C MSE 43 1_555 C N GLY 54 C GLY 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale24 C C ILE 55 C ILE 45 1_555 C N MSE 56 C MSE 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale25 C C MSE 56 C MSE 46 1_555 C N MSE 57 C MSE 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale26 C C MSE 57 C MSE 47 1_555 C N ALA 58 C ALA 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
#
_chem_comp.formula           'C10 H16 N2 O3 S' 
_chem_comp.formula_weight    244.311 
_chem_comp.id                BTN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              BIOTIN 
_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
C11 O11 BTN doub 121 n n 
C11 O12 BTN sing 122 n n 
C11 C10 BTN sing 123 n n 
O12 HO2 BTN sing 124 n n 
C10 C9 BTN sing 125 n n 
C10 H101 BTN sing 126 n n 
C10 H102 BTN sing 127 n n 
C9 C8 BTN sing 128 n n 
C9 H91 BTN sing 129 n n 
C9 H92 BTN sing 130 n n 
C8 C7 BTN sing 131 n n 
C8 H81 BTN sing 132 n n 
C8 H82 BTN sing 133 n n 
C7 C2 BTN sing 134 n n 
C7 H71 BTN sing 135 n n 
C7 H72 BTN sing 136 n n 
C2 S1 BTN sing 137 n n 
C2 C4 BTN sing 138 n n 
C2 H2 BTN sing 139 n n 
S1 C6 BTN sing 140 n n 
C6 C5 BTN sing 141 n n 
C6 H61 BTN sing 142 n n 
C6 H62 BTN sing 143 n n 
C5 N1 BTN sing 144 n n 
C5 C4 BTN sing 145 n n 
C5 H5 BTN sing 146 n n 
N1 C3 BTN sing 147 n n 
N1 HN1 BTN sing 148 n n 
C3 O3 BTN doub 149 n n 
C3 N2 BTN sing 150 n n 
N2 C4 BTN sing 151 n n 
N2 HN2 BTN sing 152 n n 
C4 H4 BTN sing 153 n n 
#
_atom_sites.entry_id                     4DVE 
_atom_sites.fract_transf_matrix[1][1]    0.011133 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000208 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017426 
_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]    0.005994 
_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 BTN A 1 201 1 BTN BTN . 
E 3 BNG A 1 202 202 BNG BNG . 
F 3 BNG A 1 203 203 BNG BNG . 
G 3 BNG A 1 204 204 BNG BNG . 
H 2 BTN B 1 201 1 BTN BTN . 
I 3 BNG B 1 202 1 BNG BNG . 
J 3 BNG B 1 203 1 BNG BNG . 
K 2 BTN C 1 201 1 BTN BTN . 
L 3 BNG C 1 202 202 BNG BNG . 
M 4 HOH A 1 301 1 HOH HOH . 
M 4 HOH A 2 302 3 HOH HOH . 
M 4 HOH A 3 303 5 HOH HOH . 
M 4 HOH A 4 304 7 HOH HOH . 
M 4 HOH A 5 305 8 HOH HOH . 
M 4 HOH A 6 306 9 HOH HOH . 
M 4 HOH A 7 307 11 HOH HOH . 
M 4 HOH A 8 308 18 HOH HOH . 
M 4 HOH A 9 309 20 HOH HOH . 
M 4 HOH A 10 310 21 HOH HOH . 
M 4 HOH A 11 311 24 HOH HOH . 
M 4 HOH A 12 312 28 HOH HOH . 
M 4 HOH A 13 313 29 HOH HOH . 
M 4 HOH A 14 314 30 HOH HOH . 
M 4 HOH A 15 315 32 HOH HOH . 
M 4 HOH A 16 316 35 HOH HOH . 
M 4 HOH A 17 317 48 HOH HOH . 
M 4 HOH A 18 318 50 HOH HOH . 
M 4 HOH A 19 319 51 HOH HOH . 
M 4 HOH A 20 320 61 HOH HOH . 
M 4 HOH A 21 321 63 HOH HOH . 
M 4 HOH A 22 322 76 HOH HOH . 
M 4 HOH A 23 323 77 HOH HOH . 
M 4 HOH A 24 324 79 HOH HOH . 
M 4 HOH A 25 325 80 HOH HOH . 
M 4 HOH A 26 326 81 HOH HOH . 
M 4 HOH A 27 327 85 HOH HOH . 
M 4 HOH A 28 328 86 HOH HOH . 
M 4 HOH A 29 329 88 HOH HOH . 
M 4 HOH A 30 330 97 HOH HOH . 
M 4 HOH A 31 331 99 HOH HOH . 
M 4 HOH A 32 332 103 HOH HOH . 
M 4 HOH A 33 333 104 HOH HOH . 
M 4 HOH A 34 334 108 HOH HOH . 
M 4 HOH A 35 335 109 HOH HOH . 
M 4 HOH A 36 336 116 HOH HOH . 
M 4 HOH A 37 337 117 HOH HOH . 
M 4 HOH A 38 338 118 HOH HOH . 
M 4 HOH A 39 339 132 HOH HOH . 
M 4 HOH A 40 340 133 HOH HOH . 
M 4 HOH A 41 341 134 HOH HOH . 
M 4 HOH A 42 342 135 HOH HOH . 
M 4 HOH A 43 343 136 HOH HOH . 
M 4 HOH A 44 344 137 HOH HOH . 
M 4 HOH A 45 345 138 HOH HOH . 
M 4 HOH A 46 346 139 HOH HOH . 
M 4 HOH A 47 347 153 HOH HOH . 
M 4 HOH A 48 348 154 HOH HOH . 
N 4 HOH B 1 301 2 HOH HOH . 
N 4 HOH B 2 302 6 HOH HOH . 
N 4 HOH B 3 303 10 HOH HOH . 
N 4 HOH B 4 304 13 HOH HOH . 
N 4 HOH B 5 305 15 HOH HOH . 
N 4 HOH B 6 306 23 HOH HOH . 
N 4 HOH B 7 307 25 HOH HOH . 
N 4 HOH B 8 308 41 HOH HOH . 
N 4 HOH B 9 309 44 HOH HOH . 
N 4 HOH B 10 310 49 HOH HOH . 
N 4 HOH B 11 311 52 HOH HOH . 
N 4 HOH B 12 312 53 HOH HOH . 
N 4 HOH B 13 313 55 HOH HOH . 
N 4 HOH B 14 314 60 HOH HOH . 
N 4 HOH B 15 315 62 HOH HOH . 
N 4 HOH B 16 316 64 HOH HOH . 
N 4 HOH B 17 317 69 HOH HOH . 
N 4 HOH B 18 318 72 HOH HOH . 
N 4 HOH B 19 319 78 HOH HOH . 
N 4 HOH B 20 320 82 HOH HOH . 
N 4 HOH B 21 321 83 HOH HOH . 
N 4 HOH B 22 322 90 HOH HOH . 
N 4 HOH B 23 323 96 HOH HOH . 
N 4 HOH B 24 324 105 HOH HOH . 
N 4 HOH B 25 325 106 HOH HOH . 
N 4 HOH B 26 326 112 HOH HOH . 
N 4 HOH B 27 327 113 HOH HOH . 
N 4 HOH B 28 328 124 HOH HOH . 
N 4 HOH B 29 329 126 HOH HOH . 
N 4 HOH B 30 330 129 HOH HOH . 
N 4 HOH B 31 331 142 HOH HOH . 
N 4 HOH B 32 332 143 HOH HOH . 
N 4 HOH B 33 333 144 HOH HOH . 
N 4 HOH B 34 334 145 HOH HOH . 
N 4 HOH B 35 335 146 HOH HOH . 
N 4 HOH B 36 336 147 HOH HOH . 
N 4 HOH B 37 337 148 HOH HOH . 
N 4 HOH B 38 338 155 HOH HOH . 
N 4 HOH B 39 339 156 HOH HOH . 
N 4 HOH B 40 340 157 HOH HOH . 
N 4 HOH B 41 341 158 HOH HOH . 
N 4 HOH B 42 342 159 HOH HOH . 
O 4 HOH C 1 301 12 HOH HOH . 
O 4 HOH C 2 302 14 HOH HOH . 
O 4 HOH C 3 303 17 HOH HOH . 
O 4 HOH C 4 304 22 HOH HOH . 
O 4 HOH C 5 305 31 HOH HOH . 
O 4 HOH C 6 306 33 HOH HOH . 
O 4 HOH C 7 307 39 HOH HOH . 
O 4 HOH C 8 308 42 HOH HOH . 
O 4 HOH C 9 309 43 HOH HOH . 
O 4 HOH C 10 310 46 HOH HOH . 
O 4 HOH C 11 311 56 HOH HOH . 
O 4 HOH C 12 312 84 HOH HOH . 
O 4 HOH C 13 313 100 HOH HOH . 
O 4 HOH C 14 314 102 HOH HOH . 
O 4 HOH C 15 315 121 HOH HOH . 
O 4 HOH C 16 316 125 HOH HOH . 
O 4 HOH C 17 317 127 HOH HOH . 
O 4 HOH C 18 318 128 HOH HOH . 
O 4 HOH C 19 319 130 HOH HOH . 
O 4 HOH C 20 320 131 HOH HOH . 
O 4 HOH C 21 321 140 HOH HOH . 
O 4 HOH C 22 322 141 HOH HOH . 
O 4 HOH C 23 323 149 HOH HOH . 
O 4 HOH C 24 324 150 HOH HOH . 
O 4 HOH C 25 325 151 HOH HOH . 
O 4 HOH C 26 326 152 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 C C11 BTN . . . D 2 45.366 -46.224 63.26 1 46.68 ? C11 BTN 201 A 1 
HETATM 2 O O11 BTN . . . D 2 45.259 -45.034 62.885 1 51.06 ? O11 BTN 201 A 1 
HETATM 3 O O12 BTN . . . D 2 45.95 -47.048 62.542 1 50.93 ? O12 BTN 201 A 1 
HETATM 4 C C10 BTN . . . D 2 44.764 -46.699 64.596 1 39.01 ? C10 BTN 201 A 1 
HETATM 5 C C9 BTN . . . D 2 45.659 -46.404 65.802 1 35.45 ? C9 BTN 201 A 1 
HETATM 6 C C8 BTN . . . D 2 45.027 -46.966 67.097 1 32.37 ? C8 BTN 201 A 1 
HETATM 7 C C7 BTN . . . D 2 45.739 -46.423 68.346 1 30.76 ? C7 BTN 201 A 1 
HETATM 8 C C2 BTN . . . D 2 45.123 -46.924 69.64 1 31.08 ? C2 BTN 201 A 1 
HETATM 9 S S1 BTN . . . D 2 43.469 -46.249 69.872 0.99 30.51 ? S1 BTN 201 A 1 
HETATM 10 C C6 BTN . . . D 2 43.513 -46.655 71.604 1 29.89 ? C6 BTN 201 A 1 
HETATM 11 C C5 BTN . . . D 2 44.97 -46.472 72.097 1 28.81 ? C5 BTN 201 A 1 
HETATM 12 N N1 BTN . . . D 2 45.185 -45.134 72.584 1 28.24 ? N1 BTN 201 A 1 
HETATM 13 C C3 BTN . . . D 2 46.045 -44.442 71.842 1 30.27 ? C3 BTN 201 A 1 
HETATM 14 O O3 BTN . . . D 2 46.403 -43.282 72.052 1 31.45 ? O3 BTN 201 A 1 
HETATM 15 N N2 BTN . . . D 2 46.467 -45.234 70.841 1 29.37 ? N2 BTN 201 A 1 
HETATM 16 C C4 BTN . . . D 2 45.909 -46.562 70.893 1 27.64 ? C4 BTN 201 A 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           306 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           16 
#