data_5IRV
#
_model_server_result.job_id            HMMmEqBdadVjUko9pD3Q-w 
_model_server_result.datetime_utc      '2024-10-16 00:19:12' 
_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          5irv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":601}' 
#
_entry.id    5IRV 
#
_exptl.entry_id    5IRV 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              399.339 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            VT-464 
_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            5IRV 
_cell.length_a            90.954 
_cell.length_b            153.499 
_cell.length_c            169.035 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5IRV 
_symmetry.cell_setting             ? 
_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
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F 1 1 
B,G,H 2 1 
C,I,J 3 1 
D,K,L 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
? 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
metalc ? metalc1 E FE HEM . A HEM 600 1_555 F N27 6D8 . A 6D8 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? 
metalc ? metalc2 G FE HEM . B HEM 600 1_555 H N26 6D8 . B 6D8 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.765 ? 
metalc ? metalc3 G FE HEM . B HEM 600 1_555 H N27 6D8 . B 6D8 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? 
metalc ? metalc4 I FE HEM . C HEM 600 1_555 J N27 6D8 . C 6D8 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? 
metalc ? metalc5 K FE HEM . D HEM 600 1_555 L N26 6D8 . D 6D8 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.74 ? 
metalc ? metalc6 K FE HEM . D HEM 600 1_555 L N27 6D8 . D 6D8 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? 
#
_chem_comp.formula           'C18 H17 F4 N3 O3' 
_chem_comp.formula_weight    399.339 
_chem_comp.id                6D8 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              VT-464 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     (1S)-1-[6,7-bis(difluoromethoxy)naphthalen-2-yl]-2-methyl-1-(2H-1,2,3-triazol-4-yl)propan-1-ol 
#
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
F15 C13 6D8 sing 1 n n 
C13 F14 6D8 sing 2 n n 
C13 O12 6D8 sing 3 n n 
O12 C11 6D8 sing 4 n n 
C10 C11 6D8 doub 5 n y 
C10 C09 6D8 sing 6 n y 
C11 C16 6D8 sing 7 n y 
C08 C09 6D8 doub 8 n y 
C08 C07 6D8 sing 9 n y 
C09 C22 6D8 sing 10 n y 
O17 C16 6D8 sing 11 n n 
O17 C18 6D8 sing 12 n n 
C16 C21 6D8 doub 13 n y 
C07 C06 6D8 doub 14 n y 
C22 C21 6D8 sing 15 n y 
C22 C23 6D8 doub 16 n y 
F19 C18 6D8 sing 17 n n 
C18 F20 6D8 sing 18 n n 
C03 C02 6D8 sing 19 n n 
C06 C23 6D8 sing 20 n y 
C06 C04 6D8 sing 21 n n 
C02 C04 6D8 sing 22 n n 
C02 C01 6D8 sing 23 n n 
C04 C24 6D8 sing 24 n n 
C04 O05 6D8 sing 25 n n 
N28 C24 6D8 sing 26 n y 
N28 N27 6D8 doub 27 n y 
C24 C25 6D8 doub 28 n y 
N27 N26 6D8 sing 29 n y 
C25 N26 6D8 sing 30 n y 
C10 H101 6D8 sing 31 n n 
C13 H131 6D8 sing 32 n n 
C21 H211 6D8 sing 33 n n 
C01 H013 6D8 sing 34 n n 
C01 H011 6D8 sing 35 n n 
C01 H012 6D8 sing 36 n n 
C02 H021 6D8 sing 37 n n 
C03 H033 6D8 sing 38 n n 
C03 H031 6D8 sing 39 n n 
C03 H032 6D8 sing 40 n n 
O05 H051 6D8 sing 41 n n 
C07 H071 6D8 sing 42 n n 
C08 H081 6D8 sing 43 n n 
C18 H181 6D8 sing 44 n n 
C23 H231 6D8 sing 45 n n 
C25 H251 6D8 sing 46 n n 
N26 H261 6D8 sing 47 n n 
#
_atom_sites.entry_id                     5IRV 
_atom_sites.fract_transf_matrix[1][1]    0.010995 
_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]    0.006515 
_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]    0.005916 
_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 HEM A 1 600 600 HEM HEM . 
F 3 6D8 A 1 601 601 6D8 LIG . 
G 2 HEM B 1 600 600 HEM HEM . 
H 3 6D8 B 1 601 601 6D8 LIG . 
I 2 HEM C 1 600 600 HEM HEM . 
J 3 6D8 C 1 601 601 6D8 LIG . 
K 2 HEM D 1 600 600 HEM HEM . 
L 3 6D8 D 1 601 601 6D8 LIG . 
#
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 C10 6D8 . . . L 3 47.498 -131.176 60.071 1 42.63 ? C10 6D8 601 D 1 
HETATM 2 C C13 6D8 . . . L 3 46.566 -130.806 57.308 1 48.99 ? C13 6D8 601 D 1 
HETATM 3 C C21 6D8 . . . L 3 45.419 -131.363 61.964 1 42.19 ? C21 6D8 601 D 1 
HETATM 4 C C22 6D8 . . . L 3 46.728 -131.823 62.295 1 36.5 ? C22 6D8 601 D 1 
HETATM 5 C C24 6D8 . . . L 3 49.505 -132.513 65.983 1 38.4 ? C24 6D8 601 D 1 
HETATM 6 C C01 6D8 . . . L 3 49.796 -135.315 66.626 1 45.37 ? C01 6D8 601 D 1 
HETATM 7 C C02 6D8 . . . L 3 49.213 -134.838 65.243 1 38.95 ? C02 6D8 601 D 1 
HETATM 8 C C03 6D8 . . . L 3 48.231 -135.895 64.677 1 35.64 ? C03 6D8 601 D 1 
HETATM 9 C C04 6D8 . . . L 3 48.545 -133.434 65.346 1 37.96 ? C04 6D8 601 D 1 
HETATM 10 O O05 6D8 . . . L 3 47.438 -133.532 66.182 1 40.42 ? O05 6D8 601 D 1 
HETATM 11 C C06 6D8 . . . L 3 48.232 -132.834 63.927 1 35.52 ? C06 6D8 601 D 1 
HETATM 12 C C07 6D8 . . . L 3 49.286 -132.74 62.974 1 34.63 ? C07 6D8 601 D 1 
HETATM 13 C C08 6D8 . . . L 3 49.058 -132.208 61.716 1 35.01 ? C08 6D8 601 D 1 
HETATM 14 C C09 6D8 . . . L 3 47.745 -131.738 61.374 1 37.19 ? C09 6D8 601 D 1 
HETATM 15 C C11 6D8 . . . L 3 46.214 -130.727 59.739 1 48.03 ? C11 6D8 601 D 1 
HETATM 16 O O12 6D8 . . . L 3 45.931 -130.157 58.442 1 47.67 ? O12 6D8 601 D 1 
HETATM 17 F F14 6D8 . . . L 3 46.717 -132.127 57.526 1 53.63 ? F14 6D8 601 D 1 
HETATM 18 F F15 6D8 . . . L 3 47.789 -130.268 57.087 1 47.37 ? F15 6D8 601 D 1 
HETATM 19 C C16 6D8 . . . L 3 45.169 -130.821 60.703 1 44.63 ? C16 6D8 601 D 1 
HETATM 20 O O17 6D8 . . . L 3 43.865 -130.37 60.386 1 45.81 ? O17 6D8 601 D 1 
HETATM 21 C C18 6D8 . . . L 3 43.313 -129.504 61.349 1 57.74 ? C18 6D8 601 D 1 
HETATM 22 F F19 6D8 . . . L 3 42.167 -128.985 60.899 1 67.53 ? F19 6D8 601 D 1 
HETATM 23 F F20 6D8 . . . L 3 44.158 -128.49 61.611 1 63.29 ? F20 6D8 601 D 1 
HETATM 24 C C23 6D8 . . . L 3 46.957 -132.367 63.583 1 33.65 ? C23 6D8 601 D 1 
HETATM 25 C C25 6D8 . . . L 3 49.237 -131.66 67.083 1 41.78 ? C25 6D8 601 D 1 
HETATM 26 N N26 6D8 . . . L 3 50.372 -130.989 67.356 1 46.17 ? N26 6D8 601 D 1 
HETATM 27 N N27 6D8 . . . L 3 51.336 -131.387 66.474 1 48.29 ? N27 6D8 601 D 1 
HETATM 28 N N28 6D8 . . . L 3 50.792 -132.326 65.636 1 44.64 ? N28 6D8 601 D 1 
HETATM 29 H H101 6D8 . . . L 3 48.205 -131.121 59.431 1 51.16 ? H101 6D8 601 D 1 
HETATM 30 H H131 6D8 . . . L 3 46.011 -130.675 56.513 1 58.79 ? H131 6D8 601 D 1 
HETATM 31 H H211 6D8 . . . L 3 44.696 -131.426 62.624 1 50.63 ? H211 6D8 601 D 1 
HETATM 32 H H013 6D8 . . . L 3 50.298 -136.145 66.5 1 54.45 ? H013 6D8 601 D 1 
HETATM 33 H H011 6D8 . . . L 3 50.394 -134.622 66.987 1 54.45 ? H011 6D8 601 D 1 
HETATM 34 H H012 6D8 . . . L 3 49.059 -135.471 67.255 1 54.45 ? H012 6D8 601 D 1 
HETATM 35 H H021 6D8 . . . L 3 49.966 -134.762 64.611 1 46.74 ? H021 6D8 601 D 1 
HETATM 36 H H033 6D8 . . . L 3 48.017 -135.676 63.724 1 42.76 ? H033 6D8 601 D 1 
HETATM 37 H H031 6D8 . . . L 3 48.644 -136.786 64.724 1 42.76 ? H031 6D8 601 D 1 
HETATM 38 H H032 6D8 . . . L 3 47.407 -135.89 65.204 1 42.76 ? H032 6D8 601 D 1 
HETATM 39 H H051 6D8 . . . L 3 46.687 -133.31 65.717 1 48.51 ? H051 6D8 601 D 1 
HETATM 40 H H071 6D8 . . . L 3 50.184 -133.058 63.212 1 41.56 ? H071 6D8 601 D 1 
HETATM 41 H H081 6D8 . . . L 3 49.796 -132.145 61.061 1 42.01 ? H081 6D8 601 D 1 
HETATM 42 H H181 6D8 . . . L 3 43.141 -130.005 62.174 1 69.29 ? H181 6D8 601 D 1 
HETATM 43 H H231 6D8 . . . L 3 46.222 -132.424 64.229 1 40.38 ? H231 6D8 601 D 1 
HETATM 44 H H251 6D8 . . . L 3 48.402 -131.575 67.546 1 50.14 ? H251 6D8 601 D 1 
HETATM 45 H H261 6D8 . . . L 3 50.479 -130.368 68.022 1 55.41 ? H261 6D8 601 D 1 
#
_model_server_stats.io_time_ms              54 
_model_server_stats.parse_time_ms           23 
_model_server_stats.create_model_time_ms    71 
_model_server_stats.query_time_ms           279 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           45 
#