TPDB

3D PDB MODEL

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

TPDB ID TPDB93190

Peptide_Name

Pip6a

Activity

Cell-penetrating Peptides

Activity_category_statistics

Delivery and barrier-penetrating peptides

Database_Source

CPPsite3.0

Sequence_Type

modified_plain

Has_Modification Yes

Description A 22-aa modified cell-penetrating peptides peptide sequence curated from CPPsite3.0, with an available 3D structural model.

Modification

N-terminal: Acetylation

Sequence

Ac-RXRRBRRXRYQFLIRXRBRXRB

FASTA

>TPDB93190|Cell-penetrating Peptides|length=22
Ac-RXRRBRRXRYQFLIRXRBRXRB

Formula C95H170N46O18

Absent Amino Acids ANDCEGHKMPSTWV

Common Amino Acids R

Mass 2244.69

PI 13.00

Basic Residues 10

Acidic Residues 0

Hydrophobic Residues 4

Net Charge +10

Boman Index 5.74

Hydrophobicity -1.759

Aliphatic Index 35.45

Half Life

Mammalian: 1 hour Yeast: 2 min E.coli: 2 min

Extinction Coefficient Cystines 1490

Absorbance 280nm 66.38

Polar Residues 2

number

0

A

10

R

0

N

0

D

0

C

0

E

1

Q

0

G

0

H

1

I

1

L

0

K

0

M

1

F

0

P

0

S

0

T

0

W

1

Y

0

V

Amino Acid Distribution

A: 0 R: 10 N: 0 D: 0 C: 0 E: 0 Q: 1 G: 0 H: 0 I: 1 L: 1 K: 0 M: 0 F: 1 P: 0 S: 0 T: 0 W: 0 Y: 1 V: 0

Length

22

Formula

C95H170N46O18

Mass

2244.69

PI

13.00

Net Charge

+10

Boman Index

5.74

Hydrophobicity

-1.759

C_terminal_Modification

Free

Chirality

Modified

Linearity

Linear

N_terminal_Modification

Acetylation

SMILES

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 SH-SY5Y Cells

Assay & Model

In Vitro Model Adult mice carrying the human SMN2 transgene (Smn1tm1Hung/WT SMN2tg/tg)

In Vivo Model Adult mice carrying the human SMN2 transgene (Smn1tm1Hung/WT SMN2tg/tg)

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 Non-natural residues Linear Modified

Source of Peptide Synthetic

Cargo Type Morpholino phosphorodiamidate oligomer (PMO)

Uptake Efficiency

Pip6a-PMOs in SH-SY5Y cells shows dose-dependent increase of full-length SMN2 (FLSMN2) expression, By contrast, PMO alone failed to increase FLSMN2 expression even at the highest dose of 500 nM , Pip6a is thus able to improve cellular uptake of PMO by neurons.

In Vitro or In Vivo In vitro and in vivo

Evidence 2 Activity

Activity

Detail Source Activity Cell-penetrating Peptides

Assay & Model

In Vitro Model HSA-LR mice

In Vivo Model HSA-LR mice

Source & Reference

Database Source CPPsite3.0

Source CPPsite3

Other

CPP Category Natural residues Linear Modified

Source of Peptide Synthetic

Cargo Type Antisense oligonucleotides (ASOs) PMOs

Uptake Efficiency

Greater than 1 nM PMO concentrations 2 weeks after Pip6a-PMO treatment, whereas mice treated with naked PMO showed low picomolar concentrations.

In Vitro or In Vivo In vivo

DSSP Secondary Structure CCTTSSCCCCC

DSSP_Secondary_Structure

CCTTSSCCCCC