TPDB

3D PDB MODEL

Drag to rotate. Click a residue or atom to inspect it; the selected residue is highlighted in amber.

TPDB ID TPDB64503

Peptide_Name

mTAT PTD-4 YA4

Activity

Cell-penetrating Peptides

Activity_category_statistics

Delivery and barrier-penetrating peptides

Database_Source

CellPPD CPPsite3.0 Peptipedia PerseuCPP

Sequence_Type

standard

Has_Modification No

Description A 11-aa standard natural cell-penetrating peptides peptide sequence curated from CellPPD, CPPsite3.0, Peptipedia, and other sources, with an available 3D structural model.

Sequence

YARAAARQARA

FASTA

>TPDB64503|Cell-penetrating Peptides|length=11
YARAAARQARA

Formula C50H85N21O14

Absent Amino Acids NDCEGHILKMFPSTWV

Common Amino Acids A

Mass 1204.36

PI 12.11

Basic Residues 3

Acidic Residues 0

Hydrophobic Residues 7

Net Charge +3

Boman Index 1.05

Hydrophobicity -0.682

Aliphatic Index 54.55

Half Life

Mammalian: 2.8 hour Yeast: 10 min E.coli: 2 min

Extinction Coefficient Cystines 1490

Absorbance 280nm 123.72

Polar Residues 2

number

6

A

3

R

0

N

0

D

0

C

0

E

1

Q

0

G

0

H

0

I

0

L

0

K

0

M

0

F

0

P

0

S

0

T

0

W

1

Y

0

V

Amino Acid Distribution

A: 6 R: 3 N: 0 D: 0 C: 0 E: 0 Q: 1 G: 0 H: 0 I: 0 L: 0 K: 0 M: 0 F: 0 P: 0 S: 0 T: 0 W: 0 Y: 1 V: 0

Length

11

Formula

C50H85N21O14

Mass

1204.36

PI

12.11

Net Charge

+3

Boman Index

1.05

Hydrophobicity

-0.682

C_terminal_Modification

Free

Chirality

L

Ionic_State

Cationic Amphipathic

Linearity

Linear

N_terminal_Modification

Free

SMILES

N[C@@H](Cc1ccccc1)C(=O)N[C@@H](C)C(=O)N[C@@H](CCCN=C)C(=O)N[C@@H](C)C(=O)N[C@@H](C)C(=O)N[C@@H](C)C(=O)N[C@@H](CCCN=C)C(=O)N[C@@H](CCC(=O)N)C(=O)N[C@@H](C)C(=O)N[C@@H](CCCN=C)C(=O)N[C@@H](C)C(=O)O N[C@@H](Cc1ccccc1)C(=O)/N=C/C(=O)N[C@@H](CCCN=C)C(=O)N[C@@H](CCCCN)C(=O)N[C@@H](CCCCN)C(=O)N[C@@H](CCCN=C)C(=O)N[C@@H](CCCN=C)C(=O)N[C@@H](CCC(=O)N)C(=O)N[C@@H](CCCN=C)C(=O)N[C@@H](CCCN=C)C(=O)N[C@@H](CCCN=C)C(=O)O

Evidence 1 Activity

Activity

Detail Source Activity Cell-penetrating Peptides

Target

Cell Line Rat Primary Cortical Cultures

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

In Vitro or In Vivo In vitro

DSSP Secondary Structure CCBTTTBCSCC

Evidence 2 Activity

Activity

Detail Source Activity Cell-penetrating Peptides

Target

Cell Line HeLa And L02 Cells

Assay & Model

In Vitro Model Xenografted cervix carcinoma BALB/c nude mice (4–5 weeks old)

In Vivo Model Xenografted cervix carcinoma BALB/c nude mice (4–5 weeks old)

Source & Reference

Database Source CPPsite3.0

Source CPPsite3

Other

CPP Category Natural residues Linear L

Source of Peptide Synthetic

Cargo Type Apoptin

Subcellular Localization Cytoplasm and nucleus

In Vitro or In Vivo In vitro and in vivo

DSSP Secondary Structure CCTTSSCCCCC

Evidence 3 Activity

Activity

Detail Source Activity Cell-penetrating Peptides

Assay & Model

In Vitro Model Normal BL6 mice, dystrophin-null mdx4cv mice and ∆R4 transgenic mice

In Vivo Model Normal BL6 mice, dystrophin-null mdx4cv mice and ∆R4 transgenic mice

Source & Reference

Database Source CPPsite3.0

Source CPPsite3

Other

CPP Category Non-natural residues Linear L Cationic

Source of Peptide Protein derived

Cargo Type Palmitoylated (Pal) R16/17-GFP protein

Uptake Efficiency Highest transduction efficiency

In Vitro or In Vivo In vivo

Evidence 4 Activity

Activity

Detail Source Activity Cell-penetrating Peptides

Target

Cell Line HeLa Cells

Source & Reference

Database Source CPPsite3.0

Source CPPsite3

Other

CPP Category Non-natural residues Linear L Amphipathic

Source of Peptide Synthetic

Cargo Type pHPMA polymer

Subcellular Localization Cytoplasm

Uptake Efficiency Do not penetrate cells better than the control polymer

In Vitro or In Vivo In vitro

DSSP_Secondary_Structure

CCBTTTBCSCC CCTTSSCCCCC