data_5IRV
#
_model_server_result.job_id            IF2ZB570zoFQ1g5sJ2es9A 
_model_server_result.datetime_utc      '2024-10-16 00:19:47' 
_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          5irv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","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 . . . F 3 19.92 -119.66 24.211 1 45.57 ? C10 6D8 601 A 1 
HETATM 2 C C13 6D8 . . . F 3 20.025 -121.912 21.953 1 50.26 ? C13 6D8 601 A 1 
HETATM 3 C C21 6D8 . . . F 3 21.207 -121.002 26.329 1 48.01 ? C21 6D8 601 A 1 
HETATM 4 C C22 6D8 . . . F 3 21.177 -119.574 26.298 1 47.59 ? C22 6D8 601 A 1 
HETATM 5 C C24 6D8 . . . F 3 21.325 -115.93 29.1 1 39.45 ? C24 6D8 601 A 1 
HETATM 6 C C01 6D8 . . . F 3 24.144 -114.834 29.175 1 38.19 ? C01 6D8 601 A 1 
HETATM 7 C C02 6D8 . . . F 3 23.525 -115.627 27.966 1 44.09 ? C02 6D8 601 A 1 
HETATM 8 C C03 6D8 . . . F 3 24.628 -116.374 27.176 1 37.37 ? C03 6D8 601 A 1 
HETATM 9 C C04 6D8 . . . F 3 22.455 -116.633 28.466 1 42.29 ? C04 6D8 601 A 1 
HETATM 10 O O05 6D8 . . . F 3 23.038 -117.48 29.39 1 45.98 ? O05 6D8 601 A 1 
HETATM 11 C C06 6D8 . . . F 3 21.797 -117.448 27.311 1 38.97 ? C06 6D8 601 A 1 
HETATM 12 C C07 6D8 . . . F 3 21.143 -116.762 26.254 1 34 ? C07 6D8 601 A 1 
HETATM 13 C C08 6D8 . . . F 3 20.536 -117.476 25.233 1 37.14 ? C08 6D8 601 A 1 
HETATM 14 C C09 6D8 . . . F 3 20.553 -118.913 25.264 1 42.8 ? C09 6D8 601 A 1 
HETATM 15 C C11 6D8 . . . F 3 19.947 -121.056 24.241 1 46.3 ? C11 6D8 601 A 1 
HETATM 16 O O12 6D8 . . . F 3 19.301 -121.817 23.2 1 45.5 ? O12 6D8 601 A 1 
HETATM 17 F F14 6D8 . . . F 3 21.304 -122.244 22.209 1 45.49 ? F14 6D8 601 A 1 
HETATM 18 F F15 6D8 . . . F 3 20.001 -120.729 21.296 1 57.81 ? F15 6D8 601 A 1 
HETATM 19 C C16 6D8 . . . F 3 20.581 -121.742 25.317 1 48.12 ? C16 6D8 601 A 1 
HETATM 20 O O17 6D8 . . . F 3 20.583 -123.165 25.274 1 51.12 ? O17 6D8 601 A 1 
HETATM 21 C C18 6D8 . . . F 3 20.477 -123.959 26.44 1 48.71 ? C18 6D8 601 A 1 
HETATM 22 F F19 6D8 . . . F 3 19.386 -124.729 26.36 1 50.73 ? F19 6D8 601 A 1 
HETATM 23 F F20 6D8 . . . F 3 20.384 -123.278 27.597 1 48.27 ? F20 6D8 601 A 1 
HETATM 24 C C23 6D8 . . . F 3 21.805 -118.846 27.342 1 41.48 ? C23 6D8 601 A 1 
HETATM 25 C C25 6D8 . . . F 3 20.288 -116.568 29.824 1 44.87 ? C25 6D8 601 A 1 
HETATM 26 N N26 6D8 . . . F 3 19.437 -115.613 30.243 1 49.77 ? N26 6D8 601 A 1 
HETATM 27 N N27 6D8 . . . F 3 19.893 -114.404 29.797 1 49.88 ? N27 6D8 601 A 1 
HETATM 28 N N28 6D8 . . . F 3 21.052 -114.612 29.09 1 42.32 ? N28 6D8 601 A 1 
HETATM 29 H H101 6D8 . . . F 3 19.485 -119.203 23.493 1 54.69 ? H101 6D8 601 A 1 
HETATM 30 H H131 6D8 . . . F 3 19.617 -122.603 21.392 1 60.31 ? H131 6D8 601 A 1 
HETATM 31 H H211 6D8 . . . F 3 21.65 -121.466 27.071 1 57.61 ? H211 6D8 601 A 1 
HETATM 32 H H013 6D8 . . . F 3 24.768 -114.16 28.839 1 45.82 ? H013 6D8 601 A 1 
HETATM 33 H H011 6D8 . . . F 3 23.424 -114.392 29.68 1 45.82 ? H011 6D8 601 A 1 
HETATM 34 H H012 6D8 . . . F 3 24.621 -115.457 29.764 1 45.82 ? H012 6D8 601 A 1 
HETATM 35 H H021 6D8 . . . F 3 23.088 -114.983 27.361 1 52.91 ? H021 6D8 601 A 1 
HETATM 36 H H033 6D8 . . . F 3 24.249 -116.71 26.312 1 44.84 ? H033 6D8 601 A 1 
HETATM 37 H H031 6D8 . . . F 3 25.372 -115.76 26.99 1 44.84 ? H031 6D8 601 A 1 
HETATM 38 H H032 6D8 . . . F 3 24.953 -117.13 27.705 1 44.84 ? H032 6D8 601 A 1 
HETATM 39 H H051 6D8 . . . F 3 22.397 -118.009 29.763 1 55.18 ? H051 6D8 601 A 1 
HETATM 40 H H071 6D8 . . . F 3 21.13 -115.78 26.24 1 40.8 ? H071 6D8 601 A 1 
HETATM 41 H H081 6D8 . . . F 3 20.082 -117 24.495 1 44.57 ? H081 6D8 601 A 1 
HETATM 42 H H181 6D8 . . . F 3 21.264 -124.542 26.487 1 58.45 ? H181 6D8 601 A 1 
HETATM 43 H H231 6D8 . . . F 3 22.249 -119.32 28.076 1 49.77 ? H231 6D8 601 A 1 
HETATM 44 H H251 6D8 . . . F 3 20.213 -117.507 29.997 1 53.85 ? H251 6D8 601 A 1 
HETATM 45 H H261 6D8 . . . F 3 18.678 -115.751 30.739 1 59.72 ? H261 6D8 601 A 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           25 
_model_server_stats.create_model_time_ms    33 
_model_server_stats.query_time_ms           278 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           45 
#