data_5VB7
#
_model_server_result.job_id            SCmCQ6RhI0oNrh1XCIHXpw 
_model_server_result.datetime_utc      '2024-10-19 23:57:13' 
_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          5vb7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":602}' 
#
_entry.id    5VB7 
#
_exptl.entry_id    5VB7 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              469.618 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "N-methyl-N'-(3-methylbut-2-en-1-yl)-N'-(3-phenoxyphenyl)-N-[trans-4-(pyridin-4-yl)cyclohexyl]urea" 
_entity.pdbx_number_of_molecules    1 
_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            5VB7 
_cell.length_a            62.959 
_cell.length_b            62.959 
_cell.length_c            155.322 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5VB7 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 A O CYS 123 A CYS 366 1_555 B NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? 
metalc ? metalc2 A O TYR 126 A TYR 369 1_555 B NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.832 ? 
metalc ? metalc3 A OG SER 165 A SER 408 1_555 B NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? 
#
_chem_comp.formula           'C30 H35 N3 O2' 
_chem_comp.formula_weight    469.618 
_chem_comp.id                921 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "N-methyl-N'-(3-methylbut-2-en-1-yl)-N'-(3-phenoxyphenyl)-N-[trans-4-(pyridin-4-yl)cyclohexyl]urea" 
_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
C10 C9 921 sing 1 n n 
C10 C3 921 sing 2 n n 
C35 C34 921 doub 3 n y 
C35 C36 921 sing 4 n y 
C20 N19 921 sing 5 n n 
C20 C21 921 sing 6 n n 
C9 C7 921 sing 7 n n 
C34 C33 921 sing 8 n y 
N19 C17 921 sing 9 n n 
N19 C25 921 sing 10 n n 
C1 N2 921 sing 11 n n 
C17 N2 921 sing 12 n n 
C17 O18 921 doub 13 n n 
C36 C31 921 doub 14 n y 
N2 C3 921 sing 15 n n 
C3 C5 921 sing 16 n n 
C21 C22 921 doub 17 n n 
C37 C25 921 doub 18 n y 
C37 C29 921 sing 19 n y 
C33 C32 921 doub 20 n y 
C7 C11 921 sing 21 n n 
C7 C6 921 sing 22 n n 
C25 C26 921 sing 23 n y 
C31 C32 921 sing 24 n y 
C31 O30 921 sing 25 n n 
C23 C22 921 sing 26 n n 
C22 C24 921 sing 27 n n 
C16 C11 921 doub 28 n y 
C16 C15 921 sing 29 n y 
C11 C12 921 sing 30 n y 
C5 C6 921 sing 31 n n 
O30 C29 921 sing 32 n n 
C29 C28 921 doub 33 n y 
C15 N14 921 doub 34 n y 
C12 C13 921 doub 35 n y 
C26 C27 921 doub 36 n y 
N14 C13 921 sing 37 n y 
C28 C27 921 sing 38 n y 
C5 H1 921 sing 39 n n 
C5 H2 921 sing 40 n n 
C6 H3 921 sing 41 n n 
C6 H4 921 sing 42 n n 
C7 H5 921 sing 43 n n 
C10 H6 921 sing 44 n n 
C10 H7 921 sing 45 n n 
C13 H8 921 sing 46 n n 
C15 H9 921 sing 47 n n 
C20 H10 921 sing 48 n n 
C20 H11 921 sing 49 n n 
C21 H12 921 sing 50 n n 
C24 H13 921 sing 51 n n 
C24 H14 921 sing 52 n n 
C24 H15 921 sing 53 n n 
C26 H16 921 sing 54 n n 
C28 H17 921 sing 55 n n 
C1 H18 921 sing 56 n n 
C1 H19 921 sing 57 n n 
C1 H20 921 sing 58 n n 
C3 H21 921 sing 59 n n 
C9 H22 921 sing 60 n n 
C9 H23 921 sing 61 n n 
C12 H24 921 sing 62 n n 
C16 H25 921 sing 63 n n 
C23 H26 921 sing 64 n n 
C23 H27 921 sing 65 n n 
C23 H28 921 sing 66 n n 
C27 H29 921 sing 67 n n 
C32 H30 921 sing 68 n n 
C33 H31 921 sing 69 n n 
C34 H32 921 sing 70 n n 
C35 H33 921 sing 71 n n 
C36 H34 921 sing 72 n n 
C37 H35 921 sing 73 n n 
#
_atom_sites.entry_id                     5VB7 
_atom_sites.fract_transf_matrix[1][1]    0.015883 
_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]    0.015883 
_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]    0.006438 
_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
B 2 NA A 1 601 1 NA NA . 
C 3 921 A 1 602 990 921 LIG . 
D 4 HOH A 1 701 54 HOH HOH . 
D 4 HOH A 2 702 80 HOH HOH . 
D 4 HOH A 3 703 41 HOH HOH . 
D 4 HOH A 4 704 1 HOH HOH . 
D 4 HOH A 5 705 49 HOH HOH . 
D 4 HOH A 6 706 5 HOH HOH . 
D 4 HOH A 7 707 26 HOH HOH . 
D 4 HOH A 8 708 23 HOH HOH . 
D 4 HOH A 9 709 35 HOH HOH . 
D 4 HOH A 10 710 82 HOH HOH . 
D 4 HOH A 11 711 20 HOH HOH . 
D 4 HOH A 12 712 25 HOH HOH . 
D 4 HOH A 13 713 85 HOH HOH . 
D 4 HOH A 14 714 18 HOH HOH . 
D 4 HOH A 15 715 27 HOH HOH . 
D 4 HOH A 16 716 14 HOH HOH . 
D 4 HOH A 17 717 62 HOH HOH . 
D 4 HOH A 18 718 96 HOH HOH . 
D 4 HOH A 19 719 22 HOH HOH . 
D 4 HOH A 20 720 97 HOH HOH . 
D 4 HOH A 21 721 21 HOH HOH . 
D 4 HOH A 22 722 34 HOH HOH . 
D 4 HOH A 23 723 55 HOH HOH . 
D 4 HOH A 24 724 8 HOH HOH . 
D 4 HOH A 25 725 2 HOH HOH . 
D 4 HOH A 26 726 17 HOH HOH . 
D 4 HOH A 27 727 68 HOH HOH . 
D 4 HOH A 28 728 16 HOH HOH . 
D 4 HOH A 29 729 11 HOH HOH . 
D 4 HOH A 30 730 13 HOH HOH . 
D 4 HOH A 31 731 52 HOH HOH . 
D 4 HOH A 32 732 31 HOH HOH . 
D 4 HOH A 33 733 24 HOH HOH . 
D 4 HOH A 34 734 7 HOH HOH . 
D 4 HOH A 35 735 84 HOH HOH . 
D 4 HOH A 36 736 32 HOH HOH . 
D 4 HOH A 37 737 88 HOH HOH . 
D 4 HOH A 38 738 37 HOH HOH . 
D 4 HOH A 39 739 56 HOH HOH . 
D 4 HOH A 40 740 65 HOH HOH . 
D 4 HOH A 41 741 10 HOH HOH . 
D 4 HOH A 42 742 12 HOH HOH . 
D 4 HOH A 43 743 48 HOH HOH . 
D 4 HOH A 44 744 45 HOH HOH . 
D 4 HOH A 45 745 30 HOH HOH . 
D 4 HOH A 46 746 50 HOH HOH . 
D 4 HOH A 47 747 6 HOH HOH . 
D 4 HOH A 48 748 9 HOH HOH . 
D 4 HOH A 49 749 3 HOH HOH . 
D 4 HOH A 50 750 38 HOH HOH . 
D 4 HOH A 51 751 4 HOH HOH . 
D 4 HOH A 52 752 40 HOH HOH . 
D 4 HOH A 53 753 92 HOH HOH . 
D 4 HOH A 54 754 39 HOH HOH . 
D 4 HOH A 55 755 44 HOH HOH . 
D 4 HOH A 56 756 19 HOH HOH . 
D 4 HOH A 57 757 60 HOH HOH . 
D 4 HOH A 58 758 36 HOH HOH . 
D 4 HOH A 59 759 42 HOH HOH . 
D 4 HOH A 60 760 46 HOH HOH . 
D 4 HOH A 61 761 75 HOH HOH . 
D 4 HOH A 62 762 89 HOH HOH . 
D 4 HOH A 63 763 93 HOH HOH . 
D 4 HOH A 64 764 43 HOH HOH . 
D 4 HOH A 65 765 15 HOH HOH . 
D 4 HOH A 66 766 57 HOH HOH . 
D 4 HOH A 67 767 51 HOH HOH . 
D 4 HOH A 68 768 28 HOH HOH . 
D 4 HOH A 69 769 87 HOH HOH . 
D 4 HOH A 70 770 66 HOH HOH . 
D 4 HOH A 71 771 67 HOH HOH . 
D 4 HOH A 72 772 86 HOH HOH . 
D 4 HOH A 73 773 95 HOH HOH . 
D 4 HOH A 74 774 76 HOH HOH . 
D 4 HOH A 75 775 77 HOH HOH . 
D 4 HOH A 76 776 83 HOH HOH . 
D 4 HOH A 77 777 94 HOH HOH . 
D 4 HOH A 78 778 91 HOH HOH . 
D 4 HOH A 79 779 98 HOH HOH . 
D 4 HOH A 80 780 69 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 C5 921 . . . C 3 -3.127 24.511 14.956 1 20.9 ? C5 921 602 A 1 
HETATM 2 C C6 921 . . . C 3 -1.719 24.827 15.416 1 23.1 ? C6 921 602 A 1 
HETATM 3 C C7 921 . . . C 3 -0.694 24.405 14.366 1 20.85 ? C7 921 602 A 1 
HETATM 4 C C10 921 . . . C 3 -2.448 24.766 12.579 1 19.7 ? C10 921 602 A 1 
HETATM 5 C C13 921 . . . C 3 2.352 26.104 15.817 1 22.31 ? C13 921 602 A 1 
HETATM 6 C C15 921 . . . C 3 2.958 23.991 15.251 1 27.59 ? C15 921 602 A 1 
HETATM 7 C C17 921 . . . C 3 -5.659 26.136 13.421 1 24.82 ? C17 921 602 A 1 
HETATM 8 C C20 921 . . . C 3 -7.897 26.972 12.879 1 25.79 ? C20 921 602 A 1 
HETATM 9 C C21 921 . . . C 3 -7.944 28.052 13.912 1 25.96 ? C21 921 602 A 1 
HETATM 10 C C22 921 . . . C 3 -8.977 28.376 14.669 1 28.78 ? C22 921 602 A 1 
HETATM 11 C C24 921 . . . C 3 -8.919 29.482 15.675 1 21.27 ? C24 921 602 A 1 
HETATM 12 C C26 921 . . . C 3 -7.108 25.309 15.724 1 25.76 ? C26 921 602 A 1 
HETATM 13 C C28 921 . . . C 3 -8.694 23.692 16.523 1 25.42 ? C28 921 602 A 1 
HETATM 14 C C1 921 . . . C 3 -5.365 23.697 13.369 1 21 ? C1 921 602 A 1 
HETATM 15 N N2 921 . . . C 3 -4.848 25.058 13.453 1 23.56 ? N2 921 602 A 1 
HETATM 16 C C3 921 . . . C 3 -3.401 25.248 13.656 1 23.21 ? C3 921 602 A 1 
HETATM 17 C C9 921 . . . C 3 -1.02 25.073 13.027 1 14.81 ? C9 921 602 A 1 
HETATM 18 C C11 921 . . . C 3 0.716 24.676 14.842 1 24.43 ? C11 921 602 A 1 
HETATM 19 C C12 921 . . . C 3 1.06 25.903 15.381 1 20.93 ? C12 921 602 A 1 
HETATM 20 N N14 921 . . . C 3 3.304 25.173 15.761 1 26.55 ? N14 921 602 A 1 
HETATM 21 C C16 921 . . . C 3 1.692 23.698 14.787 1 26.49 ? C16 921 602 A 1 
HETATM 22 O O18 921 . . . C 3 -5.215 27.259 13.529 1 31.94 ? O18 921 602 A 1 
HETATM 23 N N19 921 . . . C 3 -7.01 25.899 13.337 1 26.85 ? N19 921 602 A 1 
HETATM 24 C C23 921 . . . C 3 -10.298 27.677 14.588 1 26.43 ? C23 921 602 A 1 
HETATM 25 C C25 921 . . . C 3 -7.584 25.15 14.423 1 26.03 ? C25 921 602 A 1 
HETATM 26 C C27 921 . . . C 3 -7.659 24.575 16.759 1 29.65 ? C27 921 602 A 1 
HETATM 27 C C29 921 . . . C 3 -9.17 23.542 15.235 1 26.13 ? C29 921 602 A 1 
HETATM 28 O O30 921 . . . C 3 -10.206 22.642 15.024 1 26.19 ? O30 921 602 A 1 
HETATM 29 C C31 921 . . . C 3 -11.389 23.084 14.452 1 22.26 ? C31 921 602 A 1 
HETATM 30 C C32 921 . . . C 3 -11.991 24.238 14.916 1 25.14 ? C32 921 602 A 1 
HETATM 31 C C33 921 . . . C 3 -13.172 24.663 14.336 1 25.88 ? C33 921 602 A 1 
HETATM 32 C C34 921 . . . C 3 -13.745 23.944 13.313 1 26.94 ? C34 921 602 A 1 
HETATM 33 C C35 921 . . . C 3 -13.138 22.797 12.856 1 30.61 ? C35 921 602 A 1 
HETATM 34 C C36 921 . . . C 3 -11.956 22.356 13.422 1 22.81 ? C36 921 602 A 1 
HETATM 35 C C37 921 . . . C 3 -8.626 24.257 14.178 1 27.8 ? C37 921 602 A 1 
#
_model_server_stats.io_time_ms              69 
_model_server_stats.parse_time_ms           23 
_model_server_stats.create_model_time_ms    16 
_model_server_stats.query_time_ms           256 
_model_server_stats.encode_time_ms          17 
_model_server_stats.element_count           35 
#