data_4PK
#
_chem_comp.id 4PK
_chem_comp.name
N-[(benzyloxy)carbonyl]-O-carbamimidamido-L-homoseryl-N-{(3S,4S)-3-hydroxy-6-methyl-1-oxo-1-[(2-phenylethyl)amino]heptan-4-yl}-L-valinamide
_chem_comp.type peptide-like
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C34 H51 N7 O7"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2015-05-01
_chem_comp.pdbx_modified_date 2015-07-10
_chem_comp.pdbx_ambiguous_flag N
_chem_comp.pdbx_release_status REL
_chem_comp.pdbx_replaced_by ?
_chem_comp.pdbx_replaces ?
_chem_comp.formula_weight 669.811
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 4PK
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 4ZL4
_chem_comp.pdbx_subcomponent_list "PHQ GGB VAL STA PEA"
_chem_comp.pdbx_processing_site RCSB
#
loop_
_chem_comp_atom.comp_id
_chem_comp_atom.atom_id
_chem_comp_atom.alt_atom_id
_chem_comp_atom.type_symbol
_chem_comp_atom.charge
_chem_comp_atom.pdbx_align
_chem_comp_atom.pdbx_aromatic_flag
_chem_comp_atom.pdbx_leaving_atom_flag
_chem_comp_atom.pdbx_stereo_config
_chem_comp_atom.pdbx_backbone_atom_flag
_chem_comp_atom.pdbx_n_terminal_atom_flag
_chem_comp_atom.pdbx_c_terminal_atom_flag
_chem_comp_atom.model_Cartn_x
_chem_comp_atom.model_Cartn_y
_chem_comp_atom.model_Cartn_z
_chem_comp_atom.pdbx_model_Cartn_x_ideal
_chem_comp_atom.pdbx_model_Cartn_y_ideal
_chem_comp_atom.pdbx_model_Cartn_z_ideal
_chem_comp_atom.pdbx_component_atom_id
_chem_comp_atom.pdbx_component_comp_id
_chem_comp_atom.pdbx_ordinal
4PK C10 C1 C 0 1 Y N N N N N 0.502 107.397 39.223 -9.620 2.716 -0.985 C10 PHQ 1
4PK C02 C7 C 0 1 N N N N N N -1.594 104.168 40.969 -5.638 1.361 0.523 C02 PHQ 2
4PK O03 O1 O 0 1 N N N N N N -0.918 105.333 41.034 -6.569 2.147 -0.052 O03 PHQ 3
4PK C04 C8 C 0 1 N N N N N N -1.556 106.350 40.250 -7.795 2.369 0.694 C04 PHQ 4
4PK C05 C9 C 0 1 Y N N N N N -0.700 106.694 39.048 -8.710 3.265 -0.100 C05 PHQ 5
4PK C06 C10 C 0 1 Y N N N N N -1.108 106.307 37.757 -8.640 4.637 0.056 C06 PHQ 6
4PK C07 C11 C 0 1 Y N N N N N -0.316 106.628 36.644 -9.479 5.459 -0.672 C07 PHQ 7
4PK C08 C12 C 0 1 Y N N N N N 0.885 107.333 36.824 -10.389 4.910 -1.556 C08 PHQ 8
4PK C09 C13 C 0 1 Y N N N N N 1.296 107.718 38.111 -10.455 3.539 -1.717 C09 PHQ 9
4PK O11 O2 O 0 1 N N N N N N -2.824 104.147 40.998 -5.845 0.874 1.617 O11 PHQ 10
4PK N01 N1 N 0 1 N N N N N N -0.896 102.990 40.863 -4.477 1.115 -0.116 N GGB 11
4PK C12 C14 C 0 1 N N S N N N -1.635 101.724 40.813 -3.465 0.260 0.509 CA GGB 12
4PK C13 C2 C 0 1 N N N N N N -0.857 100.674 40.013 -3.775 -1.206 0.201 CB GGB 13
4PK C14 C15 C 0 1 N N N N N N -0.390 101.204 38.659 -5.098 -1.597 0.863 CG GGB 14
4PK C20 C4 C 0 1 N N N N N N -1.747 101.084 42.223 -2.105 0.611 -0.037 C GGB 15
4PK O15 O3 O 0 1 N N N N N N -1.547 101.532 37.905 -5.388 -2.966 0.575 OD GGB 16
4PK N16 N2 N 0 1 N N N N N N -2.475 100.488 37.870 -6.599 -3.430 1.144 NE GGB 17
4PK C17 C3 C 0 1 N N N N N N -2.666 99.871 36.686 -6.998 -4.731 0.946 CZ GGB 18
4PK N18 N3 N 0 1 N N N N N N -1.966 100.250 35.604 -6.261 -5.537 0.234 NH1 GGB 19
4PK N19 N4 N 0 1 N N N N N N -3.559 98.876 36.576 -8.173 -5.181 1.498 NH2 GGB 20
4PK O21 O4 O 0 1 N N N N N N -0.972 101.329 43.148 -1.992 1.489 -0.867 OA1 GGB 21
4PK N22 N5 N 0 1 N N N N N N -2.764 100.187 42.437 -1.013 -0.050 0.396 N VAL 22
4PK C23 C16 C 0 1 N N S N N N -2.928 99.485 43.704 0.309 0.291 -0.135 CA VAL 23
4PK C27 C18 C 0 1 N N N N N N -3.431 98.088 43.235 1.224 -0.900 -0.007 C VAL 24
4PK O28 O5 O 0 1 N N N N N N -4.625 97.880 42.990 0.949 -1.797 0.762 O VAL 25
4PK C24 C5 C 0 1 N N N N N N -3.945 100.149 44.634 0.888 1.466 0.655 CB VAL 26
4PK C26 C6 C 0 1 N N N N N N -3.750 99.434 45.992 0.032 2.712 0.417 CG1 VAL 27
4PK C25 C17 C 0 1 N N N N N N -3.652 101.662 44.774 0.890 1.126 2.147 CG2 VAL 28
4PK N29 N6 N 0 1 N N N N N N -2.512 97.082 43.055 2.348 -0.968 -0.748 N STA 29
4PK C30 C19 C 0 1 N N S N N N -2.940 95.766 42.564 3.181 -2.173 -0.706 CA STA 30
4PK C31 C20 C 0 1 N N N N N N -2.222 95.495 41.221 2.638 -3.202 -1.700 CB STA 31
4PK C32 C21 C 0 1 N N N N N N -2.461 96.604 40.177 1.247 -3.657 -1.255 CG STA 32
4PK C33 C22 C 0 1 N N N N N N -1.546 96.372 38.960 0.653 -4.590 -2.312 CD1 STA 33
4PK C34 C23 C 0 1 N N N N N N -3.929 96.623 39.706 1.354 -4.399 0.078 CD2 STA 34
4PK C35 C24 C 0 1 N N S N N N -2.529 94.674 43.563 4.620 -1.812 -1.079 CH STA 35
4PK O36 O6 O 0 1 N N N N N N -1.160 94.882 43.910 4.645 -1.261 -2.398 OH STA 36
4PK C37 C25 C 0 1 N N N N N N -3.425 94.712 44.814 5.161 -0.783 -0.086 CM STA 37
4PK C38 C26 C 0 1 N N N N N N -4.793 94.041 44.508 6.616 -0.518 -0.379 C STA 38
4PK O39 O7 O 0 1 N N N N N N -5.797 94.728 44.307 7.165 -1.097 -1.293 O STA 39
4PK C43 C29 C 0 1 Y N N N N N -6.232 91.542 46.601 10.717 1.910 0.790 "C1'" PEA 40
4PK C44 C30 C 0 1 Y N N N N N -7.376 92.186 47.082 11.073 2.915 -0.090 "C6'" PEA 41
4PK C45 C31 C 0 1 Y N N N N N -7.323 92.851 48.315 12.407 3.161 -0.355 "C5'" PEA 42
4PK C46 C32 C 0 1 Y N N N N N -6.128 92.873 49.052 13.385 2.403 0.261 "C4'" PEA 43
4PK C47 C33 C 0 1 Y N N N N N -4.982 92.234 48.562 13.029 1.398 1.141 "C3'" PEA 44
4PK C48 C34 C 0 1 Y N N N N N -5.037 91.568 47.332 11.695 1.151 1.405 "C2'" PEA 45
4PK C42 C28 C 0 1 N N N N N N -6.287 90.841 45.246 9.262 1.646 1.083 C2 PEA 46
4PK C41 C27 C 0 1 N N N N N N -6.143 91.971 44.211 8.720 0.617 0.089 C1 PEA 47
4PK N40 N7 N 0 1 N N N N N N -4.874 92.661 44.475 7.307 0.360 0.375 N PEA 48
4PK H1 H1 H 0 1 N N N N N N 0.816 107.691 40.214 -9.674 1.644 -1.107 H1 PHQ 49
4PK H9 H9 H 0 1 N N N N N N -1.696 107.250 40.866 -8.289 1.413 0.873 H9 PHQ 50
4PK H10 H10 H 0 1 N N N N N N -2.535 105.984 39.907 -7.561 2.842 1.647 H10 PHQ 51
4PK H11 H11 H 0 1 N N N N N N -2.031 105.763 37.623 -7.929 5.066 0.747 H11 PHQ 52
4PK H12 H12 H 0 1 N N N N N N -0.629 106.334 35.653 -9.428 6.531 -0.546 H12 PHQ 53
4PK H13 H13 H 0 1 N N N N N N 1.496 107.581 35.969 -11.045 5.553 -2.125 H13 PHQ 54
4PK H14 H14 H 0 1 N N N N N N 2.221 108.260 38.244 -11.165 3.110 -2.408 H14 PHQ 55
4PK H8 H8 H 0 1 N N N N N N 0.103 102.995 40.820 -4.312 1.504 -0.989 HN2 GGB 56
4PK H15 H15 H 0 1 N N N N N N -2.638 101.865 40.383 -3.474 0.415 1.588 HCA GGB 57
4PK H2 H2 H 0 1 N N N N N N -1.508 99.803 39.846 -3.853 -1.342 -0.877 HCB1 GGB 58
4PK H3 H3 H 0 1 N N N N N N 0.024 100.367 40.596 -2.975 -1.836 0.590 HCB2 GGB 59
4PK H16 H16 H 0 1 N N N N N N 0.193 100.432 38.135 -5.020 -1.460 1.941 HCG1 GGB 60
4PK H17 H17 H 0 1 N N N N N N 0.232 102.100 38.801 -5.898 -0.967 0.474 HCG2 GGB 61
4PK H18 H18 H 0 1 N N N N N N -2.977 100.210 38.689 -7.147 -2.830 1.674 HNE GGB 62
4PK H19 H19 H 0 1 N N N N N N -1.337 101.000 35.809 -5.432 -5.219 -0.156 HN1 GGB 63
4PK H20 H20 H 0 1 N N N N N N -4.088 98.588 37.375 -8.721 -4.582 2.028 HN21 GGB 64
4PK H21 H21 H 0 1 N N N N N N -3.696 98.422 35.695 -8.455 -6.099 1.358 HN22 GGB 65
4PK H22 H22 H 0 1 N N N N N N -3.414 100.009 41.699 -1.103 -0.752 1.060 H VAL 66
4PK H23 H23 H 0 1 N N N N N N -1.963 99.375 44.221 0.218 0.568 -1.185 HA VAL 67
4PK H4 H4 H 0 1 N N N N N N -4.968 99.991 44.263 1.909 1.658 0.325 HB VAL 68
4PK H5 H5 H 0 1 N N N N N N -4.449 99.852 46.731 -0.957 2.560 0.848 HG11 VAL 69
4PK H6 H6 H 0 1 N N N N N N -3.945 98.358 45.871 0.506 3.573 0.888 HG12 VAL 70
4PK H7 H7 H 0 1 N N N N N N -2.717 99.583 46.340 -0.061 2.889 -0.654 HG13 VAL 71
4PK H24 H24 H 0 1 N N N N N N -4.394 102.119 45.446 1.500 0.239 2.317 HG21 VAL 72
4PK H25 H25 H 0 1 N N N N N N -2.644 101.803 45.191 1.303 1.963 2.710 HG22 VAL 73
4PK H26 H26 H 0 1 N N N N N N -3.710 102.140 43.785 -0.131 0.934 2.477 HG23 VAL 74
4PK H27 H27 H 0 1 N N N N N N -1.547 97.247 43.259 2.606 -0.220 -1.308 HN2 STA 75
4PK H28 H28 H 0 1 N N N N N N -4.029 95.742 42.413 3.161 -2.593 0.300 HA STA 76
4PK H29 H29 H 0 1 N N N N N N -2.591 94.543 40.812 2.575 -2.752 -2.690 HB1 STA 77
4PK H30 H30 H 0 1 N N N N N N -1.141 95.419 41.410 3.308 -4.062 -1.734 HB2 STA 78
4PK H31 H31 H 0 1 N N N N N N -2.217 97.578 40.627 0.601 -2.786 -1.136 HG STA 79
4PK H32 H32 H 0 1 N N N N N N -0.496 96.357 39.288 1.298 -5.460 -2.432 HD11 STA 80
4PK H33 H33 H 0 1 N N N N N N -1.797 95.409 38.491 -0.338 -4.913 -1.996 HD12 STA 81
4PK H34 H34 H 0 1 N N N N N N -1.691 97.184 38.232 0.577 -4.061 -3.262 HD13 STA 82
4PK H35 H35 H 0 1 N N N N N N -4.590 96.788 40.570 1.777 -3.734 0.831 HD21 STA 83
4PK H36 H36 H 0 1 N N N N N N -4.069 97.434 38.977 0.362 -4.722 0.395 HD22 STA 84
4PK H37 H37 H 0 1 N N N N N N -4.175 95.660 39.235 1.999 -5.269 -0.041 HD23 STA 85
4PK H38 H38 H 0 1 N N N N N N -2.649 93.694 43.078 5.239 -2.708 -1.048 HC STA 86
4PK H39 H39 H 0 1 N N N N N N -0.885 94.216 44.529 4.114 -0.459 -2.499 HH STA 87
4PK H40 H40 H 0 1 N N N N N N -2.929 94.171 45.634 4.597 0.145 -0.180 HM1 STA 88
4PK H41 H41 H 0 1 N N N N N N -3.591 95.758 45.112 5.060 -1.168 0.929 HM2 STA 89
4PK H47 H47 H 0 1 N N N N N N -8.292 92.171 46.509 10.309 3.507 -0.571 "H6'" PEA 90
4PK H48 H48 H 0 1 N N N N N N -8.202 93.347 48.698 12.686 3.945 -1.043 "H5'" PEA 91
4PK H49 H49 H 0 1 N N N N N N -6.092 93.386 50.002 14.428 2.595 0.054 "H4'" PEA 92
4PK H50 H50 H 0 1 N N N N N N -4.063 92.255 49.129 13.793 0.805 1.622 "H3'" PEA 93
4PK H51 H51 H 0 1 N N N N N N -4.158 91.074 46.946 11.417 0.366 2.093 "H2'" PEA 94
4PK H45 H45 H 0 1 N N N N N N -7.247 90.319 45.119 9.161 1.260 2.098 H21 PEA 95
4PK H46 H46 H 0 1 N N N N N N -5.462 90.120 45.149 8.698 2.574 0.989 H22 PEA 96
4PK H43 H43 H 0 1 N N N N N N -6.981 92.677 44.309 8.822 1.003 -0.925 H11 PEA 97
4PK H44 H44 H 0 1 N N N N N N -6.136 91.549 43.195 9.284 -0.311 0.183 H12 PEA 98
4PK H42 H42 H 0 1 N N N N N N -4.048 92.120 44.635 6.867 0.822 1.105 HN2 PEA 99
#
loop_
_chem_comp_bond.comp_id
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_aromatic_flag
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_ordinal
4PK N18 C17 DOUB N N 1
4PK N19 C17 SING N N 2
4PK C07 C08 DOUB Y N 3
4PK C07 C06 SING Y N 4
4PK C17 N16 SING N N 5
4PK C08 C09 SING Y N 6
4PK C06 C05 DOUB Y N 7
4PK N16 O15 SING N N 8
4PK O15 C14 SING N N 9
4PK C09 C10 DOUB Y N 10
4PK C14 C13 SING N N 11
4PK C33 C32 SING N N 12
4PK C05 C10 SING Y N 13
4PK C05 C04 SING N N 14
4PK C34 C32 SING N N 15
4PK C13 C12 SING N N 16
4PK C32 C31 SING N N 17
4PK C04 O03 SING N N 18
4PK C12 N01 SING N N 19
4PK C12 C20 SING N N 20
4PK N01 C02 SING N N 21
4PK C02 O11 DOUB N N 22
4PK C02 O03 SING N N 23
4PK C31 C30 SING N N 24
4PK C20 N22 SING N N 25
4PK C20 O21 DOUB N N 26
4PK N22 C23 SING N N 27
4PK C30 N29 SING N N 28
4PK C30 C35 SING N N 29
4PK O28 C27 DOUB N N 30
4PK N29 C27 SING N N 31
4PK C27 C23 SING N N 32
4PK C35 O36 SING N N 33
4PK C35 C37 SING N N 34
4PK C23 C24 SING N N 35
4PK C41 N40 SING N N 36
4PK C41 C42 SING N N 37
4PK O39 C38 DOUB N N 38
4PK N40 C38 SING N N 39
4PK C38 C37 SING N N 40
4PK C24 C25 SING N N 41
4PK C24 C26 SING N N 42
4PK C42 C43 SING N N 43
4PK C43 C44 DOUB Y N 44
4PK C43 C48 SING Y N 45
4PK C44 C45 SING Y N 46
4PK C48 C47 DOUB Y N 47
4PK C45 C46 DOUB Y N 48
4PK C47 C46 SING Y N 49
4PK C10 H1 SING N N 50
4PK C13 H2 SING N N 51
4PK C13 H3 SING N N 52
4PK C24 H4 SING N N 53
4PK C26 H5 SING N N 54
4PK C26 H6 SING N N 55
4PK C26 H7 SING N N 56
4PK N01 H8 SING N N 57
4PK C04 H9 SING N N 58
4PK C04 H10 SING N N 59
4PK C06 H11 SING N N 60
4PK C07 H12 SING N N 61
4PK C08 H13 SING N N 62
4PK C09 H14 SING N N 63
4PK C12 H15 SING N N 64
4PK C14 H16 SING N N 65
4PK C14 H17 SING N N 66
4PK N16 H18 SING N N 67
4PK N18 H19 SING N N 68
4PK N19 H20 SING N N 69
4PK N19 H21 SING N N 70
4PK N22 H22 SING N N 71
4PK C23 H23 SING N N 72
4PK C25 H24 SING N N 73
4PK C25 H25 SING N N 74
4PK C25 H26 SING N N 75
4PK N29 H27 SING N N 76
4PK C30 H28 SING N N 77
4PK C31 H29 SING N N 78
4PK C31 H30 SING N N 79
4PK C32 H31 SING N N 80
4PK C33 H32 SING N N 81
4PK C33 H33 SING N N 82
4PK C33 H34 SING N N 83
4PK C34 H35 SING N N 84
4PK C34 H36 SING N N 85
4PK C34 H37 SING N N 86
4PK C35 H38 SING N N 87
4PK O36 H39 SING N N 88
4PK C37 H40 SING N N 89
4PK C37 H41 SING N N 90
4PK N40 H42 SING N N 91
4PK C41 H43 SING N N 92
4PK C41 H44 SING N N 93
4PK C42 H45 SING N N 94
4PK C42 H46 SING N N 95
4PK C44 H47 SING N N 96
4PK C45 H48 SING N N 97
4PK C46 H49 SING N N 98
4PK C47 H50 SING N N 99
4PK C48 H51 SING N N 100
#
loop_
_pdbx_chem_comp_descriptor.comp_id
_pdbx_chem_comp_descriptor.type
_pdbx_chem_comp_descriptor.program
_pdbx_chem_comp_descriptor.program_version
_pdbx_chem_comp_descriptor.descriptor
4PK SMILES ACDLabs 12.01 c2c(COC(=O)NC(C(NC(C(C)C)C(=O)NC(C(O)CC(=O)NCCc1ccccc1)CC(C)C)=O)CCON\C(=N)N)cccc2
4PK InChI InChI 1.03 InChI=1S/C34H51N7O7/c1-22(2)19-27(28(42)20-29(43)37-17-15-24-11-7-5-8-12-24)38-32(45)30(23(3)4)40-31(44)26(16-18-48-41-33(35)36)39-34(46)47-21-25-13-9-6-10-14-25/h5-14,22-23,26-28,30,42H,15-21H2,1-4H3,(H,37,43)(H,38,45)(H,39,46)(H,40,44)(H4,35,36,41)/t26-,27-,28-,30-/m0/s1
4PK InChIKey InChI 1.03 VAHRPHLZONNTFF-NUISNXNRSA-N
4PK SMILES_CANONICAL CACTVS 3.385 CC(C)C[C@H](NC(=O)[C@@H](NC(=O)[C@H](CCONC(N)=N)NC(=O)OCc1ccccc1)C(C)C)[C@@H](O)CC(=O)NCCc2ccccc2
4PK SMILES CACTVS 3.385 CC(C)C[CH](NC(=O)[CH](NC(=O)[CH](CCONC(N)=N)NC(=O)OCc1ccccc1)C(C)C)[CH](O)CC(=O)NCCc2ccccc2
4PK SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "[H]/N=C(/N)\NOCC[C@@H](C(=O)N[C@@H](C(C)C)C(=O)N[C@@H](CC(C)C)[C@H](CC(=O)NCCc1ccccc1)O)NC(=O)OCc2ccccc2"
4PK SMILES "OpenEye OEToolkits" 1.9.2 CC(C)CC(C(CC(=O)NCCc1ccccc1)O)NC(=O)C(C(C)C)NC(=O)C(CCONC(=N)N)NC(=O)OCc2ccccc2
#
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
_pdbx_chem_comp_identifier.identifier
4PK "SYSTEMATIC NAME" ACDLabs 12.01 N-[(benzyloxy)carbonyl]-O-carbamimidamido-L-homoseryl-N-{(3S,4S)-3-hydroxy-6-methyl-1-oxo-1-[(2-phenylethyl)amino]heptan-4-yl}-L-valinamide
4PK "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "(phenylmethyl) N-[(2S)-4-carbamimidamidooxy-1-[[(2S)-3-methyl-1-[[(3S,4S)-6-methyl-3-oxidanyl-1-oxidanylidene-1-(2-phenylethylamino)heptan-4-yl]amino]-1-oxidanylidene-butan-2-yl]amino]-1-oxidanylidene-butan-2-yl]carbamate"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
4PK 'Create component' 2015-05-01 RCSB
4PK 'Initial release' 2015-07-15 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.03.3 'Core functionality.'
pdbeccdutils 0.8.4 'Wrapper to provide 2D templates and molecular fragments.'
#
loop_
_pdbe_chem_comp_atom_depiction.comp_id
_pdbe_chem_comp_atom_depiction.atom_id
_pdbe_chem_comp_atom_depiction.element
_pdbe_chem_comp_atom_depiction.model_Cartn_x
_pdbe_chem_comp_atom_depiction.model_Cartn_y
_pdbe_chem_comp_atom_depiction.pdbx_ordinal
4PK C10 C 7.702 -10.500 1
4PK C02 C 7.702 -6.000 2
4PK O03 O 7.702 -7.500 3
4PK C04 C 6.404 -8.250 4
4PK C05 C 6.404 -9.750 5
4PK C06 C 5.104 -10.500 6
4PK C07 C 5.104 -12.000 7
4PK C08 C 6.404 -12.750 8
4PK C09 C 7.702 -12.000 9
4PK O11 O 6.404 -5.250 10
4PK N01 N 9.002 -5.250 11
4PK C12 C 9.002 -3.750 12
4PK C13 C 7.702 -3.000 13
4PK C14 C 7.702 -1.500 14
4PK C20 C 10.301 -3.000 15
4PK O15 O 6.404 -0.750 16
4PK N16 N 6.404 0.750 17
4PK C17 C 5.104 1.500 18
4PK N18 N 5.104 3.000 19
4PK N19 N 3.805 0.750 20
4PK O21 O 11.600 -3.750 21
4PK N22 N 10.301 -1.500 22
4PK C23 C 11.600 -0.750 23
4PK C27 C 11.600 0.750 24
4PK O28 O 10.301 1.500 25
4PK C24 C 12.899 -1.500 26
4PK C26 C 12.899 -3.000 27
4PK C25 C 14.198 -0.750 28
4PK N29 N 12.899 1.500 29
4PK C30 C 12.899 3.000 30
4PK C31 C 11.600 3.750 31
4PK C32 C 11.600 5.250 32
4PK C33 C 10.301 6.000 33
4PK C34 C 12.899 6.000 34
4PK C35 C 14.198 3.750 35
4PK O36 O 15.497 3.000 36
4PK C37 C 14.198 5.250 37
4PK C38 C 15.497 6.000 38
4PK O39 O 16.796 5.250 39
4PK C43 C 18.095 10.500 40
4PK C44 C 19.394 9.750 41
4PK C45 C 20.693 10.500 42
4PK C46 C 20.693 12.000 43
4PK C47 C 19.394 12.750 44
4PK C48 C 18.095 12.000 45
4PK C42 C 16.796 9.750 46
4PK C41 C 16.796 8.250 47
4PK N40 N 15.497 7.500 48
4PK H19 H 3.805 3.750 49
#
loop_
_pdbe_chem_comp_bond_depiction.comp_id
_pdbe_chem_comp_bond_depiction.atom_id_1
_pdbe_chem_comp_bond_depiction.atom_id_2
_pdbe_chem_comp_bond_depiction.value_order
_pdbe_chem_comp_bond_depiction.bond_dir
_pdbe_chem_comp_bond_depiction.pdbx_ordinal
4PK N18 C17 DOUBLE NONE 1
4PK N19 C17 SINGLE ENDDOWNRIGHT 2
4PK C07 C08 DOUBLE NONE 3
4PK C07 C06 SINGLE NONE 4
4PK C17 N16 SINGLE ENDDOWNRIGHT 5
4PK C08 C09 SINGLE NONE 6
4PK C06 C05 DOUBLE NONE 7
4PK N16 O15 SINGLE NONE 8
4PK O15 C14 SINGLE NONE 9
4PK C09 C10 DOUBLE NONE 10
4PK C14 C13 SINGLE NONE 11
4PK C33 C32 SINGLE NONE 12
4PK C05 C10 SINGLE NONE 13
4PK C05 C04 SINGLE NONE 14
4PK C34 C32 SINGLE NONE 15
4PK C12 C13 SINGLE BEGINWEDGE 16
4PK C32 C31 SINGLE NONE 17
4PK C04 O03 SINGLE NONE 18
4PK C12 N01 SINGLE NONE 19
4PK C12 C20 SINGLE NONE 20
4PK N01 C02 SINGLE NONE 21
4PK C02 O11 DOUBLE NONE 22
4PK C02 O03 SINGLE NONE 23
4PK C30 C31 SINGLE BEGINWEDGE 24
4PK C20 N22 SINGLE NONE 25
4PK C20 O21 DOUBLE NONE 26
4PK C23 N22 SINGLE BEGINDASH 27
4PK C30 N29 SINGLE NONE 28
4PK C30 C35 SINGLE NONE 29
4PK O28 C27 DOUBLE NONE 30
4PK N29 C27 SINGLE NONE 31
4PK C27 C23 SINGLE NONE 32
4PK C35 O36 SINGLE BEGINDASH 33
4PK C35 C37 SINGLE NONE 34
4PK C23 C24 SINGLE NONE 35
4PK C41 N40 SINGLE NONE 36
4PK C41 C42 SINGLE NONE 37
4PK O39 C38 DOUBLE NONE 38
4PK N40 C38 SINGLE NONE 39
4PK C38 C37 SINGLE NONE 40
4PK C24 C25 SINGLE NONE 41
4PK C24 C26 SINGLE NONE 42
4PK C42 C43 SINGLE NONE 43
4PK C43 C44 DOUBLE NONE 44
4PK C43 C48 SINGLE NONE 45
4PK C44 C45 SINGLE NONE 46
4PK C48 C47 DOUBLE NONE 47
4PK C45 C46 DOUBLE NONE 48
4PK C47 C46 SINGLE NONE 49
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
4PK MurckoScaffold S1 scaffold O=C(CCCNC(=O)CNC(=O)CNC(=O)OCc1ccccc1)NCCc1ccccc1 InChI=1S/C24H30N4O5/c29-21(26-15-13-19-8-3-1-4-9-19)12-7-14-25-22(30)16-27-23(31)17-28-24(32)33-18-20-10-5-2-6-11-20/h1-6,8-11H,7,12-18H2,(H,25,30)(H,26,29)(H,27,31)(H,28,32) QEFFPDFZYQWORC-UHFFFAOYSA-N
4PK amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
4PK peptide F2 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-UHFFFAOYSA-N
4PK phenyl F3 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
#
loop_
_pdbe_chem_comp_substructure_mapping.comp_id
_pdbe_chem_comp_substructure_mapping.atom_id
_pdbe_chem_comp_substructure_mapping.substructure_id
_pdbe_chem_comp_substructure_mapping.substructure_ordinal
4PK C10 S1 1
4PK C02 S1 1
4PK O03 S1 1
4PK C04 S1 1
4PK C05 S1 1
4PK C06 S1 1
4PK C07 S1 1
4PK C08 S1 1
4PK C09 S1 1
4PK O11 S1 1
4PK N01 S1 1
4PK C12 S1 1
4PK C20 S1 1
4PK O21 S1 1
4PK N22 S1 1
4PK C23 S1 1
4PK C27 S1 1
4PK O28 S1 1
4PK N29 S1 1
4PK C30 S1 1
4PK C35 S1 1
4PK C37 S1 1
4PK C38 S1 1
4PK O39 S1 1
4PK C43 S1 1
4PK C44 S1 1
4PK C45 S1 1
4PK C46 S1 1
4PK C47 S1 1
4PK C48 S1 1
4PK C42 S1 1
4PK C41 S1 1
4PK N40 S1 1
4PK N22 F1 1
4PK C20 F1 1
4PK O21 F1 1
4PK C12 F1 1
4PK N29 F1 2
4PK C27 F1 2
4PK O28 F1 2
4PK C23 F1 2
4PK N40 F1 3
4PK C38 F1 3
4PK O39 F1 3
4PK C37 F1 3
4PK O21 F2 1
4PK C20 F2 1
4PK C12 F2 1
4PK N01 F2 1
4PK O28 F2 2
4PK C27 F2 2
4PK C23 F2 2
4PK N22 F2 2
4PK C10 F3 1
4PK C09 F3 1
4PK C08 F3 1
4PK C07 F3 1
4PK C06 F3 1
4PK C05 F3 1
4PK C43 F3 2
4PK C44 F3 2
4PK C45 F3 2
4PK C46 F3 2
4PK C47 F3 2
4PK C48 F3 2
#
_pdbe_chem_comp_rdkit_properties.comp_id 4PK
_pdbe_chem_comp_rdkit_properties.exactmw 669.385
_pdbe_chem_comp_rdkit_properties.amw 669.824
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 14
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 9
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 25
_pdbe_chem_comp_rdkit_properties.NumHBD 8
_pdbe_chem_comp_rdkit_properties.NumHBA 8
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 48
_pdbe_chem_comp_rdkit_properties.NumAtoms 99
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 14
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 4
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.500
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 4
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 354.118
_pdbe_chem_comp_rdkit_properties.tpsa 216.990
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.758
_pdbe_chem_comp_rdkit_properties.CrippenMR 180.571
_pdbe_chem_comp_rdkit_properties.chi0v 22.988
_pdbe_chem_comp_rdkit_properties.chi1v 11.525
_pdbe_chem_comp_rdkit_properties.chi2v 3.872
_pdbe_chem_comp_rdkit_properties.chi3v 3.872
_pdbe_chem_comp_rdkit_properties.chi4v 2.179
_pdbe_chem_comp_rdkit_properties.chi0n 73.988
_pdbe_chem_comp_rdkit_properties.chi1n 36.511
_pdbe_chem_comp_rdkit_properties.chi2n 3.872
_pdbe_chem_comp_rdkit_properties.chi3n 3.872
_pdbe_chem_comp_rdkit_properties.chi4n 2.179
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -4.690
_pdbe_chem_comp_rdkit_properties.kappa1 8.535
_pdbe_chem_comp_rdkit_properties.kappa2 21.236
_pdbe_chem_comp_rdkit_properties.kappa3 15.737
_pdbe_chem_comp_rdkit_properties.Phi 3.776
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
4PK UniChem ChEMBL CHEMBL3782104
4PK UniChem PDBe 4PK
4PK UniChem 'Guide to Pharmacology' 10616
4PK UniChem ZINC ZINC000214011855
4PK UniChem BindingDb 50514481
4PK UniChem BRENDA 236878
4PK UniChem 'Probes And Drugs' PD126973
4PK UniChem Nikkaji J3.511.214F
4PK UniChem SureChEMBL SCHEMBL18311024
4PK UniChem PubChem 85470898
#
loop_
_pdbe_chem_comp_rdkit_conformer.comp_id
_pdbe_chem_comp_rdkit_conformer.atom_id
_pdbe_chem_comp_rdkit_conformer.Cartn_x_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_y_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_z_rdkit
_pdbe_chem_comp_rdkit_conformer.rdkit_method
_pdbe_chem_comp_rdkit_conformer.rdkit_ordinal
4PK C10 -8.874 0.076 -0.895 ETKDGv3 1
4PK C02 -5.569 -1.350 -0.132 ETKDGv3 2
4PK O03 -6.427 -1.482 0.965 ETKDGv3 3
4PK C04 -7.845 -1.547 0.843 ETKDGv3 4
4PK C05 -8.393 -0.193 0.483 ETKDGv3 5
4PK C06 -8.399 0.801 1.389 ETKDGv3 6
4PK C07 -8.904 2.140 1.023 ETKDGv3 7
4PK C08 -9.346 2.373 -0.219 ETKDGv3 8
4PK C09 -9.326 1.293 -1.225 ETKDGv3 9
4PK O11 -6.004 -1.508 -1.306 ETKDGv3 10
4PK N01 -4.196 -1.016 0.094 ETKDGv3 11
4PK C12 -3.266 -0.711 -1.003 ETKDGv3 12
4PK C13 -3.630 0.614 -1.712 ETKDGv3 13
4PK C14 -3.829 1.807 -0.767 ETKDGv3 14
4PK C20 -1.833 -0.685 -0.522 ETKDGv3 15
4PK O15 -5.063 1.687 -0.101 ETKDGv3 16
4PK N16 -5.194 2.789 0.684 ETKDGv3 17
4PK C17 -5.956 3.928 0.258 ETKDGv3 18
4PK N18 -6.509 3.958 -0.914 ETKDGv3 19
4PK N19 -6.115 5.041 1.136 ETKDGv3 20
4PK O21 -1.563 -0.216 0.617 ETKDGv3 21
4PK N22 -0.783 -1.150 -1.391 ETKDGv3 22
4PK C23 0.665 -0.966 -1.185 ETKDGv3 23
4PK C27 1.158 -1.538 0.131 ETKDGv3 24
4PK O28 0.353 -2.077 0.938 ETKDGv3 25
4PK C24 1.126 0.500 -1.447 ETKDGv3 26
4PK C26 0.569 1.528 -0.452 ETKDGv3 27
4PK C25 0.801 0.931 -2.885 ETKDGv3 28
4PK N29 2.566 -1.558 0.411 ETKDGv3 29
4PK C30 3.134 -2.098 1.653 ETKDGv3 30
4PK C31 4.593 -2.562 1.374 ETKDGv3 31
4PK C32 5.341 -3.305 2.508 ETKDGv3 32
4PK C33 6.730 -3.732 2.013 ETKDGv3 33
4PK C34 4.570 -4.535 3.010 ETKDGv3 34
4PK C35 2.928 -1.074 2.812 ETKDGv3 35
4PK O36 3.515 -1.526 4.004 ETKDGv3 36
4PK C37 3.358 0.380 2.503 ETKDGv3 37
4PK C38 4.822 0.550 2.219 ETKDGv3 38
4PK O39 5.668 0.268 3.110 ETKDGv3 39
4PK C43 6.189 0.350 -1.727 ETKDGv3 40
4PK C44 5.397 -0.690 -2.048 ETKDGv3 41
4PK C45 4.464 -0.594 -3.190 ETKDGv3 42
4PK C46 4.408 0.528 -3.917 ETKDGv3 43
4PK C47 5.286 1.668 -3.584 ETKDGv3 44
4PK C48 6.132 1.584 -2.550 ETKDGv3 45
4PK C42 7.090 0.292 -0.517 ETKDGv3 46
4PK C41 6.647 1.270 0.580 ETKDGv3 47
4PK N40 5.245 1.056 0.944 ETKDGv3 48
4PK H1 -8.859 -0.709 -1.641 ETKDGv3 49
4PK H9 -8.273 -1.869 1.816 ETKDGv3 50
4PK H10 -8.131 -2.311 0.087 ETKDGv3 51
4PK H11 -8.030 0.633 2.394 ETKDGv3 52
4PK H12 -8.909 2.933 1.759 ETKDGv3 53
4PK H13 -9.711 3.355 -0.490 ETKDGv3 54
4PK H14 -9.675 1.488 -2.231 ETKDGv3 55
4PK H8 -3.880 -0.949 1.088 ETKDGv3 56
4PK H15 -3.348 -1.528 -1.753 ETKDGv3 57
4PK H2 -4.557 0.474 -2.309 ETKDGv3 58
4PK H3 -2.826 0.865 -2.439 ETKDGv3 59
4PK H16 -3.819 2.735 -1.384 ETKDGv3 60
4PK H17 -2.991 1.864 -0.038 ETKDGv3 61
4PK H18 -4.805 2.768 1.654 ETKDGv3 62
4PK H19 -6.430 3.168 -1.592 ETKDGv3 63
4PK H20 -5.679 5.034 2.085 ETKDGv3 64
4PK H21 -6.672 5.874 0.842 ETKDGv3 65
4PK H22 -1.069 -1.622 -2.279 ETKDGv3 66
4PK H23 1.177 -1.583 -1.958 ETKDGv3 67
4PK H4 2.232 0.536 -1.357 ETKDGv3 68
4PK H5 0.678 1.169 0.592 ETKDGv3 69
4PK H6 1.133 2.480 -0.544 ETKDGv3 70
4PK H7 -0.498 1.747 -0.658 ETKDGv3 71
4PK H24 -0.297 0.965 -3.049 ETKDGv3 72
4PK H25 1.223 1.938 -3.087 ETKDGv3 73
4PK H26 1.249 0.219 -3.610 ETKDGv3 74
4PK H27 3.218 -1.218 -0.329 ETKDGv3 75
4PK H28 2.558 -3.013 1.913 ETKDGv3 76
4PK H29 4.555 -3.244 0.495 ETKDGv3 77
4PK H30 5.203 -1.699 1.049 ETKDGv3 78
4PK H31 5.516 -2.618 3.359 ETKDGv3 79
4PK H32 7.300 -4.216 2.835 ETKDGv3 80
4PK H33 7.306 -2.845 1.674 ETKDGv3 81
4PK H34 6.644 -4.448 1.167 ETKDGv3 82
4PK H35 5.186 -5.107 3.736 ETKDGv3 83
4PK H36 3.643 -4.229 3.538 ETKDGv3 84
4PK H37 4.304 -5.204 2.163 ETKDGv3 85
4PK H38 1.825 -1.030 2.977 ETKDGv3 86
4PK H39 3.092 -1.024 4.749 ETKDGv3 87
4PK H40 2.763 0.763 1.650 ETKDGv3 88
4PK H41 3.099 1.024 3.371 ETKDGv3 89
4PK H47 5.419 -1.604 -1.469 ETKDGv3 90
4PK H48 3.818 -1.429 -3.429 ETKDGv3 91
4PK H49 3.720 0.603 -4.749 ETKDGv3 92
4PK H50 5.242 2.571 -4.179 ETKDGv3 93
4PK H51 6.773 2.425 -2.313 ETKDGv3 94
4PK H45 8.124 0.550 -0.831 ETKDGv3 95
4PK H46 7.128 -0.735 -0.094 ETKDGv3 96
4PK H43 6.770 2.314 0.223 ETKDGv3 97
4PK H44 7.311 1.146 1.462 ETKDGv3 98
4PK H42 4.517 1.289 0.231 ETKDGv3 99
#