TPDB

3D PDB MODEL

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TPDB ID TPDB62502

Peptide_Name

Conjugate 16 [TAMRA-L17E(3.8)-dextran] Conjugate 29 [L17E(5.3)-PNA(5.3)-dextran]

Activity

Cell-penetrating Peptides

Activity_category_statistics

Delivery and barrier-penetrating peptides

Database_Source

CPPsite3.0

Sequence_Type

standard

Has_Modification No

Description A 25-aa standard natural cell-penetrating peptides peptide sequence curated from CPPsite3.0, with an available 3D structural model.

Modification

C-terminal: Addition of Cysteine Chemical: Dextran polymer

Sequence

IWLTALKFLGHAAKHEAKQQLSKLC

FASTA

>TPDB62502|Cell-penetrating Peptides|length=25
IWLTALKFLGHAAKHEAKQQLSKLC

Formula C131H212N36O32S1

Absent Amino Acids RNDMPYV

Common Amino Acids L

Mass 2835.41

PI 10.17

Basic Residues 6

Acidic Residues 1

Hydrophobic Residues 12

Net Charge +3

Boman Index 2.33

Hydrophobicity 0.028

Aliphatic Index 109.60

Half Life

Mammalian: 20 hour Yeast: 30 min E.coli: >10 hour

Extinction Coefficient Cystines 5500

Absorbance 280nm 193.98

Polar Residues 5

number

4

A

0

R

0

N

0

D

1

C

1

E

2

Q

1

G

2

H

1

I

5

L

4

K

0

M

1

F

0

P

1

S

1

T

1

W

0

Y

0

V

Amino Acid Distribution

A: 4 R: 0 N: 0 D: 0 C: 1 E: 1 Q: 2 G: 1 H: 2 I: 1 L: 5 K: 4 M: 0 F: 1 P: 0 S: 1 T: 1 W: 1 Y: 0 V: 0

Length

25

Formula

C131H212N36O32S1

Mass

2835.41

PI

10.17

Net Charge

+3

Boman Index

2.33

Hydrophobicity

0.028

C_terminal_Modification

Addition of Cysteine

Chemical_Modification

Dextran polymer

Chirality

L

Linearity

Linear

N_terminal_Modification

Free

SMILES

N[C@@H]([C@@H](C)CC)C(=O)N[C@@H](CC1=C(C(=NC1)C)CC)C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H]([C@@H](C)O)C(=O)N[C@@H](C)C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](CCCCN)C(=O)N[C@@H](Cc1ccccc1)C(=O)N[C@@H](CC(C)C)C(=O)NCC(=O)N[C@@H](CC1=NC=NC1)C(=O)N[C@@H](C)C(=O)N[C@@H](C)C(=O)N[C@@H](CCCCN)C(=O)N[C@@H](CC1=NC=NC1)C(=O)N[C@@H](CCC(=O)O)C(=O)N[C@@H](C)C(=O)N[C@@H](CCCCN)C(=O)N[C@@H](CCC(=O)N)C(=O)N[C@@H](CCC(=O)N)C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](CO)C(=O)N[C@@H](CCCCN)C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](CS)C(=O)O

Evidence 1 Activity

Activity

Detail Source Activity Cell-penetrating Peptides

Target

Cell Line HeLa Cells

Source & Reference

Database Source CPPsite3.0

Source CPPsite3

Other

Source Activity Label	Source Definition
Cell-penetrating Peptides	CPPsite3.0 experimentally validated cell-penetrating peptide annotation.

CPP Category Natural residues Linear L

Source of Peptide Protein derived

Cargo Type TAMRA-labelled

Subcellular Localization Cytosol and Nucleus

Uptake Efficiency

TAMRA fluorescence with conjugate 16 spread all over the cytosol and in the nucleus at 3.13 μM concentration. While TAMRA-labeled dextran (10 kDa, 25 μM) in absence of L17E peptide only showed weak uptake of the macromolecule, cells coincubated with 40 μM L17E peptide, showed enhanced uptake of TAMRA-labeled dextran (10 kDa, 25 μM)

In Vitro or In Vivo In vitro

DSSP Secondary Structure CCCTHHHHTSSSCSTHHHHTTCC

Evidence 2 Activity

Activity

Detail Source Activity Cell-penetrating Peptides

Target

Cell Line HeLa-EGFP654 Cells

Source & Reference

Database Source CPPsite3.0

Source CPPsite3

Other

CPP Category Natural residues Linear L

Source of Peptide Protein derived

Cargo Type peptide nucleic acid (PNA)

Subcellular Localization Nucleus

Uptake Efficiency Conjugate 29 displayed higher fluorescence than untreated cells even at low concentration of 2.5 μM

In Vitro or In Vivo In vitro

DSSP Secondary Structure CCCTHHHHTSSSCSTHHHHTTCC

DSSP_Secondary_Structure

CCCTHHHHTSSSCSTHHHHTTCC