data_E13
#
_chem_comp.id E13
_chem_comp.name "N-[(2S,3S)-4-{(4R)-4-[(2,2-dimethylpropyl)carbamoyl]-5,5-dimethyl-1,3-thiazolidin-3-yl}-3-hydroxy-4-oxo-1-phenylbutan-2-yl]-N~2~-{(2S)-2-[(methoxycarbonyl)amino]-2-phenylacetyl}-3-methyl-L-valinamide"
_chem_comp.type peptide-like
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C37 H53 N5 O7 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms KNI-10562
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2010-02-05
_chem_comp.pdbx_modified_date 2021-03-01
_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 711.911
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code E13
_chem_comp.pdbx_model_coordinates_details "not provided"
_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 3LIN
_chem_comp.pdbx_subcomponent_list "000 004 TBG 005 00B NPT"
_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.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
E13 CB1 C C 0 1 N N N -15.297 23.191 51.702 -8.387 0.008 -0.618 C 000 1
E13 OA1 O O 0 1 N N N -14.348 23.004 50.646 -8.283 0.255 -1.803 O 000 2
E13 OA2 OA O 0 1 N N N -16.580 22.383 51.770 -9.607 -0.113 -0.061 OA 000 3
E13 CB2 CB C 0 1 N N N -17.698 23.262 52.313 -10.752 0.070 -0.935 CB 000 4
E13 CBF C1 C 0 1 N N N -12.741 24.341 53.471 -4.956 -0.807 0.342 C 004 5
E13 NAJ N N 0 1 N N N -15.053 24.178 52.738 -7.283 -0.150 0.138 N 004 6
E13 OAK O1 O 0 1 N N N -13.008 24.259 54.643 -5.316 -1.411 1.330 O 004 7
E13 CBM CA C 0 1 N N S -13.774 24.775 52.426 -5.956 -0.024 -0.469 CA 004 8
E13 CBK CB1 C 0 1 Y N N -14.063 26.258 52.679 -5.552 1.428 -0.499 CB 004 9
E13 CAQ CE C 0 1 Y N N -14.664 29.233 53.178 -4.812 4.091 -0.553 CE 004 10
E13 CAT CD1 C 0 1 Y N N -13.966 28.392 54.274 -4.527 3.272 -1.630 CD1 004 11
E13 CAU CD2 C 0 1 Y N N -15.048 28.577 51.833 -5.472 3.579 0.549 CD2 004 12
E13 CAX CG1 C 0 1 Y N N -13.676 26.902 54.027 -4.897 1.941 -1.603 CG1 004 13
E13 CAY CG2 C 0 1 Y N N -14.745 27.089 51.577 -5.842 2.247 0.576 CG2 004 14
E13 N N1 N 0 1 N N N -11.402 24.080 52.962 -3.661 -0.836 -0.031 N TBG 15
E13 CA CA1 C 0 1 N N S -10.397 23.679 53.939 -2.689 -1.598 0.758 CA TBG 16
E13 CB CB2 C 0 1 N N N -10.058 22.181 53.643 -2.700 -3.060 0.308 CB TBG 17
E13 CAG CG11 C 0 1 N N N -11.195 21.257 54.146 -2.175 -3.155 -1.127 CG1 TBG 18
E13 CG1 CG21 C 0 1 N N N -9.922 22.013 52.119 -1.805 -3.885 1.234 CG2 TBG 19
E13 CG2 CG3 C 0 1 N N N -8.750 21.776 54.363 -4.130 -3.601 0.365 CG3 TBG 20
E13 C C2 C 0 1 N N N -9.128 24.539 53.858 -1.312 -1.019 0.553 C TBG 21
E13 O O2 O 0 1 N N N -8.340 24.471 52.958 -1.128 -0.181 -0.304 O TBG 22
E13 CBI C3 C 0 1 N N N -5.508 26.077 56.065 3.479 -1.483 1.224 C 005 23
E13 NBC N2 N 0 1 N N N -8.935 25.444 54.981 -0.286 -1.433 1.323 N 005 24
E13 OAN O3 O 0 1 N N N -5.151 27.138 56.462 4.188 -0.965 2.060 O 005 25
E13 CBN CA2 C 0 1 N N S -6.955 25.618 56.218 2.091 -1.941 1.592 CA 005 26
E13 CBJ CD C 0 1 Y N N -8.775 28.135 53.986 0.331 1.435 1.196 CD 005 27
E13 CBA CG C 0 1 N N N -8.016 27.753 55.245 1.256 0.406 1.793 CG 005 28
E13 CAP CH C 0 1 Y N N -10.298 28.806 51.483 -1.366 3.323 0.101 CH 005 29
E13 CBO CB11 C 0 1 N N S -7.737 26.253 55.047 1.067 -0.930 1.071 CB1 005 30
E13 OAO OB2 O 0 1 N N N -7.467 25.963 57.469 1.983 -2.040 3.013 OB2 005 31
E13 CAV CE1 C 0 1 Y N N -8.008 28.822 52.844 -0.941 1.602 1.711 CE1 005 32
E13 CAW CE2 C 0 1 Y N N -10.262 27.754 53.879 0.757 2.216 0.138 CE2 005 33
E13 CAR CZ1 C 0 1 Y N N -8.813 29.184 51.596 -1.790 2.545 1.163 CZ1 005 34
E13 CAS CZ2 C 0 1 Y N N -11.061 28.096 52.619 -0.091 3.161 -0.409 CZ2 005 35
E13 CBH C4 C 0 1 N N N -3.101 26.718 54.124 5.537 0.144 -0.124 C 00B 36
E13 NBR N3 N 0 1 N N N -4.587 25.172 55.391 3.933 -1.650 -0.034 N 00B 37
E13 OAM O4 O 0 1 N N N -3.924 26.757 53.262 4.598 0.894 0.041 O 00B 38
E13 CBQ CA3 C 0 1 N N R -3.079 25.574 55.149 5.293 -1.313 -0.424 CA 00B 39
E13 CBU CB3 C 0 1 N N N -2.303 24.349 54.566 5.576 -1.565 -1.923 CB 00B 40
E13 CAZ CD3 C 0 1 N N N -4.920 23.788 54.817 3.087 -2.194 -1.115 CD 00B 41
E13 CAH CG12 C 0 1 N N N -1.323 24.765 53.462 6.459 -0.461 -2.509 CG1 00B 42
E13 CAI CG22 C 0 1 N N N -1.529 23.630 55.677 6.207 -2.942 -2.139 CG2 00B 43
E13 SBE SG3 S 0 1 N N N -3.587 23.345 53.879 3.876 -1.498 -2.628 SG3 00B 44
E13 NBB N4 N 0 1 N N N -2.076 27.756 54.222 6.797 0.613 -0.038 N NPT 45
E13 CBL C11 C 0 1 N N N -2.061 28.846 53.261 7.034 2.029 0.254 C1 NPT 46
E13 CBS C21 C 0 1 N N N -2.721 30.088 53.906 8.540 2.296 0.296 C2 NPT 47
E13 CAB C31 C 0 1 N N N -1.917 30.498 55.163 9.158 1.945 -1.059 C3 NPT 48
E13 CAC C41 C 0 1 N N N -2.707 31.202 52.835 8.787 3.775 0.601 C4 NPT 49
E13 CAD C5 C 0 1 N N N -4.178 29.763 54.309 9.181 1.436 1.387 C5 NPT 50
E13 HB2 HB H 0 1 N N N -18.630 22.680 52.364 -10.721 -0.669 -1.735 HB 000 51
E13 HB2A HBA H 0 0 N N N -17.430 23.615 53.320 -11.671 -0.054 -0.361 HBA 000 52
E13 HB2B HBB H 0 0 N N N -17.841 24.126 51.647 -10.725 1.072 -1.365 HBB 000 53
E13 HNAJ HN H 0 0 N N N -15.648 24.400 53.510 -7.367 -0.347 1.084 HN 004 54
E13 HBM HA H 0 1 N N N -13.398 24.519 51.425 -5.983 -0.414 -1.487 HA 004 55
E13 HAQ HE H 0 1 N N N -14.882 30.276 53.353 -4.519 5.130 -0.572 HE 004 56
E13 HAT HD1 H 0 1 N N N -13.683 28.850 55.210 -4.012 3.672 -2.490 HD1 004 57
E13 HAU HD2 H 0 1 N N N -15.532 29.166 51.068 -5.695 4.219 1.390 HD2 004 58
E13 HAX HG1 H 0 1 N N N -13.203 26.308 54.795 -4.674 1.301 -2.444 HG1 004 59
E13 HAY HG2 H 0 1 N N N -15.008 26.633 50.634 -6.358 1.848 1.436 HG2 004 60
E13 HN HN1 H 0 1 N N N -11.183 24.171 51.991 -3.372 -0.354 -0.821 H TBG 61
E13 HA HA1 H 0 1 N N N -10.792 23.816 54.957 -2.953 -1.541 1.814 HA TBG 62
E13 HAG HG11 H 0 1 N N N -10.939 20.209 53.930 -1.156 -2.770 -1.167 HG11 TBG 63
E13 HAGA HG12 H 0 0 N N N -11.320 21.387 55.231 -2.183 -4.197 -1.447 HG12 TBG 64
E13 HAGB HG13 H 0 0 N N N -12.133 21.519 53.635 -2.813 -2.567 -1.786 HG13 TBG 65
E13 HG1 HG21 H 0 1 N N N -9.683 20.965 51.885 -2.185 -3.827 2.254 HG21 TBG 66
E13 HG1A HG22 H 0 0 N N N -10.870 22.290 51.634 -1.803 -4.925 0.906 HG22 TBG 67
E13 HG1B HG23 H 0 0 N N N -9.116 22.664 51.749 -0.789 -3.492 1.203 HG23 TBG 68
E13 HG2 HG31 H 0 1 N N N -8.523 20.722 54.147 -4.767 -3.012 -0.295 HG31 TBG 69
E13 HG2A HG32 H 0 0 N N N -7.924 22.409 54.006 -4.137 -4.642 0.044 HG32 TBG 70
E13 HG2B HG33 H 0 0 N N N -8.872 21.910 55.448 -4.503 -3.532 1.387 HG33 TBG 71
E13 HNBC HN2 H 0 0 N N N -9.625 25.506 55.702 -0.443 -2.064 2.042 HN 005 72
E13 HBN HA2 H 0 1 N N N -7.041 24.522 56.174 1.899 -2.915 1.143 HA 005 73
E13 HBA HG H 0 1 N N N -7.084 28.328 55.346 2.289 0.736 1.680 HG 005 74
E13 HBAA HGA H 0 0 N N N -8.614 27.938 56.150 1.028 0.282 2.852 HGA 005 75
E13 HAP HH H 0 1 N N N -10.827 29.047 50.573 -2.029 4.060 -0.327 HH 005 76
E13 HBO HB1 H 0 1 N N N -7.173 26.248 54.103 1.208 -0.787 0.000 HB1 005 77
E13 HOAO HOB2 H 0 0 N N N -6.911 26.622 57.868 2.142 -1.207 3.479 HOB2 005 78
E13 HAV HE1 H 0 1 N N N -6.953 29.038 52.920 -1.272 0.994 2.540 HE1 005 79
E13 HAW HE2 H 0 1 N N N -10.745 27.242 54.698 1.753 2.089 -0.260 HE2 005 80
E13 HAR HZ1 H 0 1 N N N -8.333 29.711 50.785 -2.786 2.672 1.561 HZ1 005 81
E13 HAS HZ2 H 0 1 N N N -12.109 27.852 52.530 0.240 3.768 -1.238 HZ2 005 82
E13 HBQ HA3 H 0 1 N N N -2.582 25.882 56.081 5.986 -1.912 0.167 HA 00B 83
E13 HAZ HD H 0 1 N N N -5.085 23.061 55.626 3.124 -3.284 -1.123 HD 00B 84
E13 HAZA HDA H 0 0 N N N -5.831 23.831 54.202 2.060 -1.844 -1.015 HDA 00B 85
E13 HAH HG14 H 0 1 N N N -0.800 23.875 53.081 7.409 -0.434 -1.974 HG1 00B 86
E13 HAHA HG1A H 0 0 N N N -1.877 25.244 52.641 6.642 -0.664 -3.564 HG1A 00B 87
E13 HAHB HG1B H 0 0 N N N -0.589 25.474 53.872 5.956 0.500 -2.405 HG1B 00B 88
E13 HAI HG24 H 0 1 N N N -0.989 22.771 55.252 5.528 -3.714 -1.777 HG2 00B 89
E13 HAIA HG2A H 0 0 N N N -0.810 24.327 56.132 6.396 -3.093 -3.202 HG2A 00B 90
E13 HAIB HG2B H 0 0 N N N -2.233 23.276 56.444 7.148 -3.001 -1.591 HG2B 00B 91
E13 HNBB HN11 H 0 0 N N N -1.388 27.716 54.947 7.548 0.013 -0.170 HN1 NPT 92
E13 HBL H11 H 0 1 N N N -1.023 29.080 52.982 6.577 2.641 -0.523 H11 NPT 93
E13 HBLA H12 H 0 0 N N N -2.621 28.554 52.360 6.594 2.279 1.219 H12 NPT 94
E13 HAB H31 H 0 1 N N N -2.383 31.381 55.625 8.701 2.557 -1.836 H31 NPT 95
E13 HABA H32 H 0 0 N N N -1.913 29.666 55.883 10.231 2.135 -1.029 H32 NPT 96
E13 HABB H33 H 0 0 N N N -0.883 30.738 54.875 8.982 0.891 -1.276 H33 NPT 97
E13 HAC H41 H 0 1 N N N -3.168 32.112 53.246 8.347 4.025 1.566 H41 NPT 98
E13 HACA H42 H 0 0 N N N -1.668 31.417 52.543 9.859 3.965 0.631 H42 NPT 99
E13 HACB H43 H 0 0 N N N -3.275 30.870 51.953 8.330 4.387 -0.176 H43 NPT 100
E13 HAD H51 H 0 1 N N N -4.639 30.651 54.766 9.005 0.382 1.170 H51 NPT 101
E13 HADA H52 H 0 0 N N N -4.749 29.473 53.415 10.253 1.627 1.417 H52 NPT 102
E13 HADB H53 H 0 0 N N N -4.182 28.934 55.032 8.740 1.686 2.352 H53 NPT 103
# #
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
E13 OA1 CB1 DOUB N N 1
E13 OA2 CB1 SING N N 2
E13 CB2 OA2 SING N N 3
E13 CB2 HB2 SING N N 4
E13 CB2 HB2A SING N N 5
E13 CB2 HB2B SING N N 6
E13 CBF OAK DOUB N N 7
E13 NAJ HNAJ SING N N 8
E13 CBM CBF SING N N 9
E13 CBM NAJ SING N N 10
E13 CBM CBK SING N N 11
E13 CBM HBM SING N N 12
E13 CBK CAX SING Y N 13
E13 CAQ CAT SING Y N 14
E13 CAQ HAQ SING N N 15
E13 CAT HAT SING N N 16
E13 CAU CAQ DOUB Y N 17
E13 CAU HAU SING N N 18
E13 CAX CAT DOUB Y N 19
E13 CAX HAX SING N N 20
E13 CAY CBK DOUB Y N 21
E13 CAY CAU SING Y N 22
E13 CAY HAY SING N N 23
E13 N CA SING N N 24
E13 N HN SING N N 25
E13 CA CB SING N N 26
E13 CA C SING N N 27
E13 CA HA SING N N 28
E13 CB CAG SING N N 29
E13 CB CG1 SING N N 30
E13 CB CG2 SING N N 31
E13 CAG HAG SING N N 32
E13 CAG HAGA SING N N 33
E13 CAG HAGB SING N N 34
E13 CG1 HG1 SING N N 35
E13 CG1 HG1A SING N N 36
E13 CG1 HG1B SING N N 37
E13 CG2 HG2 SING N N 38
E13 CG2 HG2A SING N N 39
E13 CG2 HG2B SING N N 40
E13 C O DOUB N N 41
E13 CBI CBN SING N N 42
E13 CBI OAN DOUB N N 43
E13 NBC CBO SING N N 44
E13 NBC HNBC SING N N 45
E13 CBN OAO SING N N 46
E13 CBN HBN SING N N 47
E13 CBJ CBA SING N N 48
E13 CBA HBA SING N N 49
E13 CBA HBAA SING N N 50
E13 CAP CAR DOUB Y N 51
E13 CAP CAS SING Y N 52
E13 CAP HAP SING N N 53
E13 CBO CBN SING N N 54
E13 CBO CBA SING N N 55
E13 CBO HBO SING N N 56
E13 OAO HOAO SING N N 57
E13 CAV CBJ DOUB Y N 58
E13 CAV HAV SING N N 59
E13 CAW CBJ SING Y N 60
E13 CAW HAW SING N N 61
E13 CAR CAV SING Y N 62
E13 CAR HAR SING N N 63
E13 CAS CAW DOUB Y N 64
E13 CAS HAS SING N N 65
E13 CBH CBQ SING N N 66
E13 OAM CBH DOUB N N 67
E13 CBQ NBR SING N N 68
E13 CBQ HBQ SING N N 69
E13 CBU CBQ SING N N 70
E13 CBU CAI SING N N 71
E13 CAZ NBR SING N N 72
E13 CAZ HAZ SING N N 73
E13 CAZ HAZA SING N N 74
E13 CAH CBU SING N N 75
E13 CAH HAH SING N N 76
E13 CAH HAHA SING N N 77
E13 CAH HAHB SING N N 78
E13 CAI HAI SING N N 79
E13 CAI HAIA SING N N 80
E13 CAI HAIB SING N N 81
E13 SBE CBU SING N N 82
E13 SBE CAZ SING N N 83
E13 NBB CBL SING N N 84
E13 NBB HNBB SING N N 85
E13 CBL CBS SING N N 86
E13 CBL HBL SING N N 87
E13 CBL HBLA SING N N 88
E13 CBS CAB SING N N 89
E13 CBS CAC SING N N 90
E13 CBS CAD SING N N 91
E13 CAB HAB SING N N 92
E13 CAB HABA SING N N 93
E13 CAB HABB SING N N 94
E13 CAC HAC SING N N 95
E13 CAC HACA SING N N 96
E13 CAC HACB SING N N 97
E13 CAD HAD SING N N 98
E13 CAD HADA SING N N 99
E13 CAD HADB SING N N 100
E13 CB1 NAJ SING N N 101
E13 CBF N SING N N 102
E13 C NBC SING N N 103
E13 CBI NBR SING N N 104
E13 CBH NBB SING N N 105
# #
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
E13 SMILES ACDLabs 12.01 "O=C(NCC(C)(C)C)C3N(C(=O)C(O)C(NC(=O)C(NC(=O)C(c1ccccc1)NC(=O)OC)C(C)(C)C)Cc2ccccc2)CSC3(C)C"
E13 SMILES_CANONICAL CACTVS 3.370 "COC(=O)N[C@H](C(=O)N[C@H](C(=O)N[C@@H](Cc1ccccc1)[C@H](O)C(=O)N2CSC(C)(C)[C@H]2C(=O)NCC(C)(C)C)C(C)(C)C)c3ccccc3"
E13 SMILES CACTVS 3.370 "COC(=O)N[CH](C(=O)N[CH](C(=O)N[CH](Cc1ccccc1)[CH](O)C(=O)N2CSC(C)(C)[CH]2C(=O)NCC(C)(C)C)C(C)(C)C)c3ccccc3"
E13 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "CC1([C@H](N(CS1)C(=O)[C@H]([C@H](Cc2ccccc2)NC(=O)[C@H](C(C)(C)C)NC(=O)[C@H](c3ccccc3)NC(=O)OC)O)C(=O)NCC(C)(C)C)C"
E13 SMILES "OpenEye OEToolkits" 1.7.0 "CC1(C(N(CS1)C(=O)C(C(Cc2ccccc2)NC(=O)C(C(C)(C)C)NC(=O)C(c3ccccc3)NC(=O)OC)O)C(=O)NCC(C)(C)C)C"
E13 InChI InChI 1.03 "InChI=1S/C37H53N5O7S/c1-35(2,3)21-38-32(46)29-37(7,8)50-22-42(29)33(47)27(43)25(20-23-16-12-10-13-17-23)39-31(45)28(36(4,5)6)41-30(44)26(40-34(48)49-9)24-18-14-11-15-19-24/h10-19,25-29,43H,20-22H2,1-9H3,(H,38,46)(H,39,45)(H,40,48)(H,41,44)/t25-,26-,27-,28+,29+/m0/s1"
E13 InChIKey InChI 1.03 BNMOFZILPSBXGG-OTJWULCMSA-N
# #
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
E13 "SYSTEMATIC NAME" ACDLabs 12.01 "N-[(2S,3S)-4-{(4R)-4-[(2,2-dimethylpropyl)carbamoyl]-5,5-dimethyl-1,3-thiazolidin-3-yl}-3-hydroxy-4-oxo-1-phenylbutan-2-yl]-N~2~-{(2S)-2-[(methoxycarbonyl)amino]-2-phenylacetyl}-3-methyl-L-valinamide"
E13 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 "methyl N-[(1S)-2-[[(2S)-1-[[(2S,3S)-4-[(4R)-4-(2,2-dimethylpropylcarbamoyl)-5,5-dimethyl-1,3-thiazolidin-3-yl]-3-hydroxy-4-oxo-1-phenyl-butan-2-yl]amino]-3,3-dimethyl-1-oxo-butan-2-yl]amino]-2-oxo-1-phenyl-ethyl]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
E13 "Create component" 2010-02-05 RCSB
E13 "Modify aromatic_flag" 2011-06-04 RCSB
E13 "Modify descriptor" 2011-06-04 RCSB
E13 "Modify synonyms" 2021-03-01 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id E13
_pdbx_chem_comp_synonyms.name KNI-10562
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
##