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Peptide record

TPDB92498

Arg-Gly- Asp (RGD) Arg-Gly-Asp arginine-glycine-aspartic acid cRGD-conjugated F127 PDA-CD-RGD Polyamidoamine (PAMAM) RGD RGD-HZ-GMS Cell-penetrating Peptides Toxicity Tumor-homing Peptides Selfassembly standard
3 amino acids
Basic Information
3D PDB MODEL
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TPDB92498
Arg-Gly- Asp (RGD) Arg-Gly-Asp arginine-glycine-aspartic acid cRGD-conjugated F127 PDA-CD-RGD Polyamidoamine (PAMAM) RGD RGD-HZ-GMS
Cell-penetrating Peptides Toxicity Tumor-homing Peptides Selfassembly
Cancer-related peptides Toxicity and safety peptides Delivery and barrier-penetrating peptides Self-assembling and biomaterial peptides
CPPsite3.0 Peptipedia TumorHoPe2.0 SAPdb
standard
No
A 3-aa standard natural multi-activity (Cell-penetrating Peptides, Toxicity, Tumor-homing Peptides, and other sources) peptide sequence curated from CPPsite3.0, Peptipedia, TumorHoPe2.0, and other sources, with an available 3D structural model.
C-terminal: amide group (-NH2)
Sequence
RGD
Physicochemical Analysis
C12H22N6O6
ANCEQHILKMFPSTWYV
RDG
346.34
6.78
1
1
0
-0
2.05
-2.800
0.00
Mammalian: 1 hour Yeast: 2 min E.coli: 2 min
0
0.00
0
Residue Composition
number
0
A
1
R
0
N
1
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
0
V
Amino Acid Distribution
A: 0 R: 1 N: 0 D: 1 C: 0 E: 0 Q: 0 G: 1 H: 0 I: 0 L: 0 K: 0 M: 0 F: 0 P: 0 S: 0 T: 0 W: 0 Y: 0 V: 0
Chemical Descriptors
3
C12H22N6O6
346.34
6.78
-0
2.05
-2.800
amide group (-NH2)
RGD
Self-Assembly Information 8 records
Record 1 Selfassembly

Source

29573728
10.1016/j.compbiomed.2021.104391
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly

Self-Assembly

Nanostructure formation
Nanofiber
pH: 7.4 solvent: PCL-CHIT polymer solutions concentration: 2.0 mg mL-1
Selfassembly; Nanostructure=Nanofiber; Trigger=pH: 7.4; solvent: PCL-CHIT polymer solutions; concentration: 2.0 mg mL-1
Scanning Electron Microscopy (SEM)
Selfassembly
Record 2 Selfassembly

Source

31152925
10.1016/j.compbiomed.2021.104391
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly

Self-Assembly

Nanostructure formation
Nanoparticle nanoparticles
temperature: Room temperature solvent: ethanol concentration: 100ml
Selfassembly; Nanostructure=Nanoparticle; nanoparticles; Trigger=temperature: Room temperature; solvent: ethanol; concentration: 100ml
mass and 1H-NMR spectrum and infrared spectroscopy (IR)
Selfassembly
Record 3 Selfassembly

Source

30127610
10.1016/j.compbiomed.2021.104391
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly

Self-Assembly

Nanostructure formation
Nanoparticle nanoparticles
Selfassembly; Nanostructure=Nanoparticle; nanoparticles
confocal microscopy
Selfassembly
Record 4 Selfassembly

Source

30356964
10.1016/j.compbiomed.2021.104391
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly

Self-Assembly

Nanostructure formation
Nanoparticle nanoparticles
Selfassembly; Nanostructure=Nanoparticle; nanoparticles
TEM, UV/vis spectra, FT-IR
Selfassembly
Record 5 Selfassembly

Source

30651772
10.1016/j.compbiomed.2021.104391
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly

Self-Assembly

Nanostructure formation
Nanofiber nanofibers
Selfassembly; Nanostructure=Nanofiber; nanofibers
scanning electron microscopy (SEM) and Fourier‑transform infrared spectroscopy.
Selfassembly
Record 6 Selfassembly

Source

28787634
10.1016/j.compbiomed.2021.104391
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly

Self-Assembly

Nanostructure formation
long twisted ribbons
pH: 10 solvent: sodium carbonate/bicarbonate buffers concentration: 5.0 x 10-3 M
Selfassembly; Nanostructure=long twisted ribbons; Trigger=pH: 10; solvent: sodium carbonate/bicarbonate buffers; concentration: 5.0 x 10-3 M
circular dichroism (CD), UV absorption spectroscopy, cryogenic transmission electron microscopy (cryo-TEM), small angle X-ray scattering (SAXS) and static light scattering (SLS)
Selfassembly
Record 7 Selfassembly

Source

30103136
10.1016/j.compbiomed.2021.104391
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly

Self-Assembly

Nanostructure formation
nanoparticles
pH: 6.3 temperature: Room temperature solvent: MNPs dispersed in water concentration: mg/mL
Selfassembly; Nanostructure=nanoparticles; Trigger=pH: 6.3; temperature: Room temperature; solvent: MNPs dispersed in water; concentration: mg/mL
Transmission Electron Microscopy (TEM)
Selfassembly
Record 8 Selfassembly

Source

27427416
10.1016/j.compbiomed.2021.104391
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly

Self-Assembly

Nanostructure formation
Nanocrystals
pH: 8 temperature: Room temperature solvent: Borate buffer concentration: 0.02mol/l
Selfassembly; Nanostructure=Nanocrystals; Trigger=pH: 8; temperature: Room temperature; solvent: Borate buffer; concentration: 0.02mol/l
Transmission Electron Microscopy (TEM)
Selfassembly
Evidence Records 9 records
Evidence 1 Activity

Activity

Tumor-homing Peptides

Target

Tumor cell
Targeting
Gastric cancer, Hepatocellular carcinoma, Colorectal cancer, Lung adenocarcinoma
integrin avb3

Source & Reference

TumorHoPe2.0
TumorHoPe2
Designed synthetic analogs of the α-helical peptide temporin-La with improved antitumor efficacies via charge modification and incorporation of the integrin αvβ3 homing domain
2012
Yuwen Diao et al. J Pept Sci. 2012 Jul 18(7):476-86.

Other

Source Activity Label Source Definition
Tumor-homing Peptides
TumorHoPe2.0 experimentally validated tumor-homing peptide annotation.
lung adenocarcinoma epithelial cell line(A549), human colorectal carcinomacell line(SW1116),humangastric carcinoma cell line (BGC-823), human epithelial carcinomacell line (Hela), humanhepatocellular liver carcinomacell line(HepG2), human hepato carcinoma cell line(SMMC-7721),human embryonic kidney cell line (HEK 293T), human liver cell line (HL-7702), bovine mammary epithelial cells(MECs),andperipheral blood mononuclear cell(PBMC)
Synthetic
Evidence 2 Selfassembly

Activity

Nanostructure formation
Selfassembly Nanostructure=Nanofiber Trigger=pH: 7.4 solvent: PCL-CHIT polymer solutions concentration: 2.0 mg mL-1
Nanofiber

Source & Reference

SAPdb
10.1016/j.compbiomed.2021.104391

Other

None specified
pH: 7.4 solvent: PCL-CHIT polymer solutions concentration: 2.0 mg mL-1
Scanning Electron Microscopy (SEM)
29573728
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly
SAPdb ID NA low-detail seed row from experimentally curated self-assembly database.
Evidence 3 Selfassembly

Activity

Nanostructure formation
Selfassembly Nanostructure=Nanoparticle nanoparticles Trigger=temperature: Room temperature solvent: ethanol concentration: 100ml
Nanoparticle nanoparticles

Source & Reference

SAPdb
10.1016/j.compbiomed.2021.104391

Other

None specified
temperature: Room temperature solvent: ethanol concentration: 100ml
mass and 1H-NMR spectrum and infrared spectroscopy (IR)
31152925
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly
SAPdb ID NA low-detail seed row from experimentally curated self-assembly database.
Evidence 4 Selfassembly

Activity

Nanostructure formation
Selfassembly Nanostructure=Nanoparticle nanoparticles
Nanoparticle nanoparticles

Source & Reference

SAPdb
10.1016/j.compbiomed.2021.104391

Other

None specified
confocal microscopy
30127610
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly
SAPdb ID NA low-detail seed row from experimentally curated self-assembly database.
Evidence 5 Selfassembly

Activity

Nanostructure formation
Selfassembly Nanostructure=Nanoparticle nanoparticles
Nanoparticle nanoparticles

Source & Reference

SAPdb
10.1016/j.compbiomed.2021.104391

Other

None specified
TEM, UV/vis spectra, FT-IR
30356964
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly
SAPdb ID NA low-detail seed row from experimentally curated self-assembly database.
Evidence 6 Selfassembly

Activity

Nanostructure formation
Selfassembly Nanostructure=Nanofiber nanofibers
Nanofiber nanofibers

Source & Reference

SAPdb
10.1016/j.compbiomed.2021.104391

Other

None specified
scanning electron microscopy (SEM) and Fourier‑transform infrared spectroscopy.
30651772
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly
SAPdb ID NA low-detail seed row from experimentally curated self-assembly database.
Evidence 7 Selfassembly

Activity

Nanostructure formation
Selfassembly Nanostructure=long twisted ribbons Trigger=pH: 10 solvent: sodium carbonate/bicarbonate buffers concentration: 5.0 x 10-3 M
long twisted ribbons

Source & Reference

SAPdb
10.1016/j.compbiomed.2021.104391

Other

None specified
pH: 10 solvent: sodium carbonate/bicarbonate buffers concentration: 5.0 x 10-3 M
circular dichroism (CD), UV absorption spectroscopy, cryogenic transmission electron microscopy (cryo-TEM), small angle X-ray scattering (SAXS) and static light scattering (SLS)
28787634
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly
SAPdb ID NA low-detail seed row from experimentally curated self-assembly database.
Evidence 8 Selfassembly

Activity

Nanostructure formation
Selfassembly Nanostructure=nanoparticles Trigger=pH: 6.3 temperature: Room temperature solvent: MNPs dispersed in water concentration: mg/mL
nanoparticles

Source & Reference

SAPdb
10.1016/j.compbiomed.2021.104391

Other

None specified
pH: 6.3 temperature: Room temperature solvent: MNPs dispersed in water concentration: mg/mL
Transmission Electron Microscopy (TEM)
30103136
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly
SAPdb ID 1692 nanostr_class=Other but nanostr gives explicit morphology low-detail seed row.
Evidence 9 Selfassembly

Activity

Nanostructure formation
Selfassembly Nanostructure=Nanocrystals Trigger=pH: 8 temperature: Room temperature solvent: Borate buffer concentration: 0.02mol/l
Nanocrystals

Source & Reference

SAPdb
10.1016/j.compbiomed.2021.104391

Other

None specified
pH: 8 temperature: Room temperature solvent: Borate buffer concentration: 0.02mol/l
Transmission Electron Microscopy (TEM)
27427416
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly
SAPdb ID 1837 nanostr_class=Other but nanostr gives explicit morphology low-detail seed row.
Additional Detail Fields 6 fields
pH: 7.4 solvent: PCL-CHIT polymer solutions concentration: 2.0 mg mL-1 temperature: Room temperature solvent: ethanol concentration: 100ml pH: 10 solvent: sodium carbonate/bicarbonate buffers concentration: 5.0 x 10-3 M pH: 6.3 solvent: MNPs dispersed in water concentration: mg/mL pH: 8 solvent: Borate buffer concentration: 0.02mol/l
lung adenocarcinoma epithelial cell line(A549), human colorectal carcinomacell line(SW1116),humangastric carcinoma cell line (BGC-823), human epithelial carcinomacell line (Hela), humanhepatocellular liver carcinomacell line(HepG2), human hepato carcinoma cell line(SMMC-7721),human embryonic kidney cell line (HEK 293T), human liver cell line (HL-7702), bovine mammary epithelial cells(MECs),andperipheral blood mononuclear cell(PBMC)
None specified
SAPdb ID NA low-detail seed row from experimentally curated self-assembly database. SAPdb ID 1692 nanostr_class=Other but nanostr gives explicit morphology low-detail seed row. SAPdb ID 1837
29573728 31152925 30127610 30356964 30651772 28787634 30103136 27427416
SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly