Peptide Library: SARS-CoV-2 Receptor Binding Domains

Coronavirus
Coronavirus receptor binding domain. The key receptor binding domain (residues 319-541) is highlighted in yellow. Variable amino acid residues between SARS-CoV-2 and SARS-CoV are highlighted in cyan. Tyr 489, Asn 487, Gln 493, Tyr 505 are important for ACE2 binding.

LifeTein can help in your research with custom peptide synthesis of the following specific proteins: SARS-CoV-2 Receptor Binding Domains, SARS-CoV-2 Nucleocapsid Fragments, T-cell and B-cell Epitopes of SARS-CoV-2, Fusion Inhibitors Targeting HR1 Domain of the SARS-CoV-2 Spike Proteins, Inhibitors of SARS-CoV-2 Mpro/3CLpro/C30 Endopeptidase, ACE2 Inhibitors and Substrates, and AT2 Receptor Agonists and Antagonists.

Pool of 22 peptides derived from a peptide design (15mers with 5 aa overlap) through the receptor binding domain of S1 protein.

Modifications: N-Terminal: Biotin Labeling

Amount: 1mg per peptide

Purity: 95%

Delivery Format: Freeze dried powder

Application(s): Antibody screening, T-cell assays, Immune monitoring, Antigen specific T-cell stimulation, Cellular immune response

Indication(s)/Topic(s): Covid-19, Infection, Respiratory infection

Delivery Time: 2 weeks

SARS-CoV-2 Receptor Binding Domains Overlapping Peptide Pools:

  • QPTESIVRFPNITNL
  • NITNLCPFGEVFNAT
  • VFNATRFASVYAWNR
  • YAWNRKRISNCVADY
  • CVADYSVLYNSASFS
  • SASFSTFKCYGVSPT
  • GVSPTKLNDLCFTNV
  • CFTNVYADSFVIRGD
  • VIRGDEVRQIAPGQT
  • APGQTGKIADYNYKL
  • YNYKLPDDFTGCVIA
  • GCVIAWNSNNLDSKV
  • LDSKVGGNYNYLYRL
  • YLYRLFRKSNLKPFE
  • LKPFERDISTEIYQA
  • EIYQAGSTPCNGVEG
  • NGVEGFNCYFPLQSY
  • PLQSYGFQPTNGVGY
  • NGVGYQPYRVVVLSF
  • VVLSFELLHAPATVC
  • PATVCGPKKSTNLVK
  • TNLVKNKCVNFNFNG

The Cationic Host Defense Peptides Could Be Used To Kill Enveloped Novel Coronavirus SARS-CoV-2

Direct antimicrobial mechanisms of cationic host defense peptides

The cationic host defense peptides (CHDP), also known as antimicrobial peptides, could be used to kill enveloped viruses such as the 2019 Novel Coronavirus SARS-CoV-2. The peptides have the potential to destabilize the viral envelope on contact, damaging the virions and inhibiting infectivity. The specific antiviral peptide may bind to cellular receptors involved in viral infection or peptide-mediated aggregation of viral particles. The antiviral peptides could create an ‘antiviral shield’ at mucosal surfaces and prevent replication and spread of the Coronavirus if upregulated after the initial infection.

During pandemics, where there is insufficient time to produce vaccines (such as the outbreak of respiratory illness Covid-19 first detected in Wuhan, China), the cationic host defense peptides could be the first-line antiviral treatments.

Some of the antimicrobial peptides are the human cathelicidin LL-37 and β-defensins. Cathelicidins are immunomodulatory antimicrobials with an important role in the regulation of the inflammatory response. The only human cathelicidin, LL-37, is the most well-studied peptide in this family. LL-37 is an α-helical peptide. While defensins have a common β-sheet core stabilized with three disulfide bridges between six conserved cysteine residues.

Direct antimicrobial mechanisms of cationic host defense peptides can be mediated by membrane translocation of the peptides followed by binding to intracellular targets such as nucleic acids and/or proteins to kill bacteria. Proline-rich antimicrobial peptides use inner membrane transporters as Trojan horses to gain entry and bind to intracellular targets such as nucleic acids or nascent proteins. And subsequently affect cell processes such as replication, transcription, translation, protein folding, and cell wall synthesis.

At this stage, only a few peptide-derived treatments have made it to market such as PAC-113, a histatin analog, and dalbavancin, a semisynthetic lipoglycopeptide.

Despite the limited understanding of structure-function relationships, the potential of peptide-based therapies remains a promising new clinical direction for the Coronavirus.

2019-nCoV Coronavirus Receptor -Binding Motif Directly Contacts ACE2 Receptor

2019-nCoV Coronavirus Receptor -Binding Motif Directly Contacts ACE2 Receptor
2019-nCoV Coronavirus Receptor -Binding Motif

The extensive structural analyses have revealed that interactions between SARS-CoV spike protein receptor-binding domain (RBD) and its host receptor angiotensin-converting enzyme 2 (ACE2), which regulate both the cross-species and human-to-human transmissions of SARS-CoV.

Studies showed that the sequence of 2019-nCoV coronavirus RBD, including its receptor -binding motif (RBM) that directly contacts ACE2 and uses ACE2 as its receptor with much higher affinity (10-20 times higher!) than SARS.

Several critical residues in 2019-nCoV RBM may provide favorable interactions with human ACE2 such as Gln493 and Asn501.

A total of nine cysteine residues are found in the RBD, six of which forming three pairs of disulfide bonds. Among these three pairs, two are in the core (Cys336-Cys361 and Cys379-Cys432) to help stabilize the β sheet structure while the remaining one (Cys480-Cys488) connects loops in the distal end of the RBM.

LifeTein synthesized a 69 amino acid spike glycoprotein in 6 days

Coronavirus SARS-CoV-2
Coronavirus SARS-CoV-2

2019 Novel Coronavirus SARS-CoV-2 is a virus identified as the cause of an outbreak of respiratory illness Covid-19 first detected in Wuhan, China.

To help expedite Covid-19 research, LifeTein synthesized a 69 amino acid spike glycoprotein with one disulfide bond in 6 days. This effort is a partnership with a biotech company for drug development.

Cyclic peptides as broad-spectrum antiviral agents

Cyclic peptides as broad-spectrum antiviral agent

Cyclic peptides as broad-spectrum antiviral agents

Antiviral drugs and vaccines are the most powerful tools to combat viral diseases. Most drugs and vaccines only target a single virus. However, the broad-spectrum antivirals can be used for rapid management of new or drug-resistant viral strains. Cyclized peptides and peptide analogs are excellent examples of broad-spectrum antivirals.

An artificial peptide molecule was found to neutralize a broad range of group 1 influenza A viruses, including H5N1. The peptide design was based on complementarity determining region (CDR) loops have been reported for other viral targets. The optimized peptides bind to the highly conserved stem epitope and block the low pH-induced conformational rearrangements associated with membrane fusion.

These peptidic compounds and their advantageous biological properties should accelerate development of novel small molecule and peptide-based therapeutics against influenza virus.

The linear peptide is Suc-SQLRSLEYFEWLSQ-NH2. Three cyclization strategies were used: head to tail, side chain to side chain and side chain to tail. An ornithine (Orn) side chain was fused with the carboxyl terminus of β-alanine for lactam formation.

Check here for more details: Potent peptidic fusion inhibitors of influenza virus, Science 28 Sep 2017, DOI: 10.1126/science.aan0516

Lately, more broad-spectrum antiviral agents were found to target viruses. It was found that 55 compounds can target eight different RNA and DNA viruses. Dalbavancin is a novel lipo-glycopeptide antibiotic. The lipoglycopeptide disrupts bacterial cell wall formation by binding to
the terminal d-alanyl-d-alanine peptidoglycan sequence in Gram-positive bacteria in a linear, concentration-dependent manner. The dalbavancin has effects on echovirus 1, ezetimibe against HIV1 and Zika virus.

More details: https://www.ncbi.nlm.nih.gov/pubmed/29698664

Magnetic Beads: Expert Tips and Protocols for Effective Use

Magnetic beads

Protein Purification Using Magnetic Beads: Top Tips for Success

Magnetic bead-based protein purification offers a powerful solution for various applications like high-throughput microscale purification, pull-down/CoIP experiments, and protein-protein or protein-DNA interaction studies. Here’s why magnetic beads are the top choice: they can be coated with specific affinity ligands for antigens, antibodies, proteins, or nucleic acids. Moreover, magnetic beads are non-porous and have a defined diameter, eliminating hidden surfaces where molecules can stick, leading to reduced background, simplified purification, and streamlined washing steps. Compared to traditional bead separation methods involving agarose, sepharose, or silica beads, magnetic bead separation stands out as the quickest, cleanest, and most efficient technique.

If you’re new to working with magnetic beads, here are some essential tips to ensure success:

  1. Thorough Resuspension: Ensure uniformity across aliquots by thoroughly resuspending your magnetic beads. These nano-superparamagnetic beads are covalently coated with highly functional groups, providing increased binding capacity and better dispersion. Since magnetic beads are composed of iron oxide and can settle over time, it’s crucial to vortex and resuspend them thoroughly before use to redisperse the beads.
  2. Enhanced Washing: Minimize non-specific binding by increasing the number of washing steps. Whether you’re using ethanol or the recommended wash buffer, make sure to use an adequate volume of wash solution to cover the bead pellet.
  3. Understanding Functional Groups: Different beads are covalently coated with various functional groups like maleimide, primary amine, NHS, carboxylic acid, purified streptavidin, protein A, reduced glutathione, nickel-charged nitrilotriacetic acid, or groups for DNA/RNA purification. These coatings, along with buffer conditions, affect bead properties. Understanding these specifics is essential for proper bead handling.
  4. Efficient Bead Capture: Magnetic beads typically form a pellet attracted to the magnet within a minute. Extend the attraction time to ensure efficient bead capture.
  5. Gentle Supernatant Removal: When removing the wash solution or supernatant, angle the pipette tip to avoid disturbing the magnetic bead pellet. Ensure that the tip doesn’t come into contact with the pellet.

By following these tips, you can make the most of magnetic bead-based protein purification, improving the efficiency and reliability of your experiments.

New Publication: Cell Cited LifeTein Biotinylated Peptide Products

Pull-down assay using biotinylated peptides

Giantin, a novel conserved Golgi membrane protein, is a disulfide-linked homodimer. It was found that BFA-induced Golgi disorganization is associated with the monomerization of giantin.

The pull-down experiment was performed. The control peptide biotin-GHGTGSTGSGSMLRTLLRRRL synthesized by LifeTein was incubated with lysate and Dynabeads, as well as the lysate incubated with Dynabeads only served as a control. Dynabeads carrying MGAT1 peptide were able to pull-down giantin from the lysate of HeLa cells, however, giantin was not detected in the pull-down fraction from the lysate exposed to the Dynabeads or in combination with control peptide. It is logical to hypothesize that the MGAT1 binding domain of giantin lies within its N-terminal non-coiled-coil area.

The Dynabeads function similarly to LifeTein magnetic beads:
https://www.lifetein.com/peptide-product/amineactivated-peptide-conjugation-magnetic-beads-p-3647.html

Cells 2019, 8(12), 1631; https://doi.org/10.3390/cells8121631

Full list of Cell-Penetrating Peptides

Table 1 Selection of cell-penetrating peptides

(Reference: https://doi.org/10.1007/978-981-13-8747-0, Ülo Langel, CPP, Cell-Penetrating Peptides, 2019)

Name Sequence
2 DSLKSYWYLQKFSWR (Kondo et al. 2012)
18A DWLKAFYDKVAEKLKEAF (Datta et al. 2000)
α1H KSKTEYYNAWAVWERNAP (Gomarasca et al. 2017)
α2H GNGEQREMAVSRLRDCLDRQA (Gomarasca et al. 2017)
A22p HTPGNSNKWKHLQENKKGRPRR (Shin et al. 2014)
Ac-18A-NH2 DWLKAFYDKVAEKLKEAF) (Wimley and White 2000)
aCPP Typical sequence R9GPLGLAGE8 (Li et al 2015)
AdVpVI(33-55) Ac-GAFSWGSLWSGIKNFGSTVKNYG (Murayama et al. 2016)
AIP6 RLRWR (Wang et al. 2011)
all-d DsC18 Glrkrlrkfrnkikek (Bergmann et al. 2017)
αgliadin(31-43) LGQQQPFPPQQPY (Paolella et al. 2018)
Alyteserin-2a ILGKLLSTAAGLLSNL (Conlon et al. 2013)
ANG TFFYGGSRGKRNNFKTEEY (Demeule et al. 2008)
ApoE(141–150) Ac-LRKLRKRLLRX-Bpg-G (Shabanpoor et al. 2017)
ApoE-derived Ac-LRKLRKRLLR (Tailhades et al. 2017)
Arf(1-22) MVRRFLVTLRIRRACGPPRVRV (Johansson et al. 2008)
AT1002 FCIGRL (Gopalakrishnan et al. 2009)
AT1AR(304-318) FLGKKFKKYFLQLLK (Östlund et al. 2005)
Bac7 RRIRPRPPRLPRPRPRPLPFPRPGPRPIPRPL (Sadler et al. 2002)
BGPC7-FHV RRRRNRTRRNRRRVR-RRFYGPV (Wongso et al. 2017)
Bim EIWIAQELRRIGDEFNAYYARLLC (Kim et al. 2017)
BP16 KKLFKKILKKL (Soler et al. 2014)
BP100 KKLFKKILKYL (Eggenberger et al. 2009)
BPP13a GGWPRPGPEIPP (Sciani et al. 2017)
bPrPp(1-30) MVKSKIGSWILVLFVAMWSDVGLCKKRPKP (Magzoub et al. 2006)
BR2 RAGLQFPVGRLLRRLLR (Lim et al. 2013)
Buforin II TRSSRAGLQFPVGRVIIRLLRK (Park et al.1998)
Buforin IIb RAGLQFPVG[RLLR]3 (Lee et al. 2008)
C6M1 RLWRLLWRLWRRLWRLLR (Jafari et al. 2014)
C105Y CSIPPEVKFNKPFVYLI (Rhee and Davis 2006)
CADY GLWRALWRLLRSLWRLLWRA cycteamide (Crombez et al. 2009a)
CAR CARSKNKDC (Toba et al. 2014)
CA-Tat KWKLFKKYGRKKRRQRRR (Lv et al. 2017)
CB5005 M KLKLALALALA (Zhang et al. 2016)
CDB3 REDEDEIEW (Issaeva et al. 2003)
CendR RPARPAR (Hu et al. 2014)
cF<tR4 cyclic F<tRRRRQ (Qian et al. 2014)
CGKRK CGKRK (Griffin et al. 2017)
CIGB-300 cyclic CWMSPRHLGTC-Tat (Perera et al. 2012)
CIGB-552 Ac-HARIKpTFRRlKWKYKGKFW (Fernandez Masso et al. 2013)
CLIP6 KVRVRVRVpPTRVRERVK (Soudah et al. 2017)
CooP ACGLSGLGVA (Hyvonen et al. 2014)
CpMTP ARLLWLLRGLTLGTAPRRA (Jain and Chugh 2016)
CPNT STSGTGKMTRAQRRAAARRNRA (Qi et al. 2011)
CPP1 (KFF)3K (Patel et al. 2017)
CPP33 RLWMRWYSPRTRAYG (Lin et al. 2018)
CPP-C PIEVCMYREP (Nakayama et al. 2011)
CPPecp NYRWRCKNQN (Fu et al. 2017)
C-peptide GPGLWERQAREHSERKKRRRESECKAA (Fan et al. 2016)
CRGDK CRGDK (Zhao et al. 2018)
Crotamine YKQCHKKGGHCFPKEKICLPPSSDFGKMDCRWRWKCCKKGSG (Rodrigues et al. 2012)
cSN50 AAVALLPAVLLALLAPVQRKRQKLMP (Torgerson et al. 1998)
65-2CTS CPYVNQRPQKARYRNG (Percipalle et al. 2003)
CWR8K CWR8K (Sasaki et al. 2008)
CyLoP-1 CRWRWKCCKK (Ponnappan et al. 2017)
Cyt c(77–101) GTKMIFVGIKKKEERADLIKKA (Howl and Jones 2015)
DAG cyclic CDAGRKQKC (Mann et al. 2017)
D-JNKI-1 RPKRPTTLNLFPQVPRSQDT (Bonny et al. 2001)
DK17 DRQIKIWFQNRRMKWKK (Bera et al. 2016)
DLP ACKTGSHNQCG (Kumar et al. 2015)
DMBT1-derived GRVEVLYRGSW and GRVRVLYRGSW (Tuttolomondo et al. 2017)
dNP2 KIKKVKKKGRK-KIKKVKKKGRK (Lim et al. 2015)
DPV3 RKKRRRESRKKRRRES (Tacken et al. 2008)
DPV1047 CVKRGLKLRHVRPRVTRMDV (De Coupade et al. 2005)
DRTTLTN DRTTLTN (Gennari et al. 2016)
DS4.3 RIMRILRILKLAR (Jeong et al. 2014)
Dynorphin A YGGFLRRIRPKLKWDNQ (Marinova et al. 2005)
EA GLKKLAELAHKLLKLGC (Yang et al. 2014)
EB1 LIRLWSHLIHIWFQNRRLKWKKK (Lundberg et al. 2007)
EF GLKKLAELFHKLLKLGC (Yang et al. 2014)
EHB RCSHYTGIRCSHMAATTAGIYTGIRCQHVVL-C6H (Cao et al. 2018)
EPRNEEK EPRNEEK (Orihuela et al. 2009)
F3** diphosphorylated dipeptide (Miao et al. 2016)
G4R9L4 G4R9L4 (Ramakrishna et al. 2014)
GALA WEAALAEALAEALAEHLAEALAEALEALAA (Li et al. 2004)
GeT KIAKLKAKIQKLKQKIAKLK (Rakowska et al. 2014)
gH625 HGLASTLTRWAHYNALIRAF (Galdiero et al. 2015)
Gi3α(346-355) KNNLKECGLY (Jones et al. 2005)
Glu-Lys EEEAAKKK (Lewis et al. 2010)
GV1001 EARPALLTSRLRFIPK (Kim et al. 2016a)
GWH1 GYNYAKKLANLAKKFANALW (Serna et al. 2017)
H2A derived SGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKG (Rosenbluh et al. 2004)
H6R6 H6R6 (Sun et al. 2017)
H16 H16 (Iwasaki et al. 2015)
HA2(1-23) GLFGAIAGFIENGWEGMIDGWYG (Esbjörner et al. 2007)
HAIYPRH HAIYPRH (Shteinfer-Kuzmine et al. 2017)
hBD3-3 GKCSTRGRKCCRRKK (Lee et al. 2015b)
HBP GKRKKKGKGLGKKRDPCLRKYK (Luo et al. 2016)
hLF KCFQWQRNMRKVRGPPVSCIKR (Duchardt et al. 2009)
Hph-1 YARVRRRGPRR (Jung et al. 2011)
HR9 CH5-R9-H5C (Liu et al. 2013a)
Hst5 DSHAKRHHGYKRKFHEKHHSHRGY (Luque-Ortega et al. 2008)
I1WL5W WKKIWSKIKKLLK (Bi et al. 2014)
I4WL5W IKKWWSKIKKLLK (Bi et al. 2014)
ID No.2 MAAWMRSLFSPLKKLWIRMH (Eudes and Macmillan 2014)
IMT-P8 RRWRRWNRFNRRRCR (Gautam et al. 2016)
INF GLFEAIEGFIENGWEGMIDGWYGC (Pichon et al. 1997)
iNGR CRNGRGPDC (Alberici et al. 2013)
isl-1 RVIRVWFQNKRCKDKK (Kilk et al. 2001)
JB9 cskc (Basu and Wickstrom, 1997)
JB434 R9GGLAA-Aib-SGWKH6 (Sangtani et al. 2018)
KAFAK KAFAKLAARLYRKALARQLGVAA (Bartlett et al. 2013)
KALA WEAKLAKALAKALAKHLAKALAKALKACEA (Wyman et al. 1997)
Kalata B1 polycyclic CGETCVGGTCNTPGCTCSWPVCTRNGLPV (Daly et al. 1999)
(KFF)3K (KFF)3K (Rownicki et al. 2017)
K-FGF AAVLLPVLLAAP (Lin et al. 1995)
KH (KH)9 (Chuah et al. 2016)
KLA KLAKLAKKLAKLAK (Huang et al. 2017)
KLAK KLALKLALKALKAALKLA (Oehlke et al. 1998)
KLA-R7 KLAKLAKKLAKLAKGGRRRRRRR (Lemeshko, 2013)
KP MAPTKRKGSCPGAAPNKKP (Villa-Cedillo et al. 2017)
KST peptide STGKANKITITNDKGRLSK (Adachi et al. 2017)
L1−6 PLILLRLLR (Schmidt et al. 2017)
L5a RRWQW (Liu et al. 2016a)
L17E IWLTALKFLGKHAAKHEAKQQLSKL (Akishiba et al. 2017)
lactoferrampin(265- 284) DLIWKLLSKAQEKFGKNKSR (Reyes-Cortes et al. 2017)
lactoferricin(17-30) FKCRRWQWRMKKLG (Reyes-Cortes et al. 2017)
lactoferrin(19-40) KCFMWQEMLNKAGVPKLRCARK (Duchardt et al. 2009)
LAH1 KKLALALALALHALALALALKKA (Moulay et al. 2017)
LALF(31-52) HYRIKPTFRRLKWKYKGKFW (Yanez et al. 2017)
LB FKCRRWQWRMKKLGAPSITCVRRAF) (Liu et al. 2013b)
L-CPP LAGRRRRRRRRRK (Liu et al. 2006)
LDP-NLS KWRRKLKKLRPKKKRKV (Ponnappan and Chugh, 2017)
LE10 LELELELELELELELELELE (Antunes et al. 2013)
LF chimera FKCRRWQWRMKKLG-K-RSKNKGFKEQAKSLLKWILD (Reyes-Cortes et al. 2017)
linTT1 AKRGARSTA (Hunt et al. 2017)
LK LKKLLKLLKKLLKLAG (Kim et al. 2016b)
LL37 LLGDFFRKSKEKIGKEFKRIVQRIKDFLRNLVPRTES (Kim et al. 2016b)
LLIIL LLIIL (Alaybeyoglu et al. 2017)
LMWP VSRRRRRRGGRRRR (Chen et al. 2017d)
LP-12 HIITDPNMAEYL (Kumar et al. 2015)
LPAs RCnRCnK (Gupta et al. 2011)
LTV LTVSPWY (Chopra 2012)
lycosin-I RKGWFKAMKSIAKFIAKEKLKEHL (Tan et al. 2017)
Lyp1 CGNKRTRGC (Fogal et al. 2008)
M918 MVTVLFRRLRIRRACGPPRVRV (El-Andaloussi et al. 2007)
Maurocalcine GDCLPHLKLCKENKGCCSKKCKRRGTNIEKRCR (Poillot et al. 2010)
MAP KLALKLALKALKAALKLA (Oehlke et al. 1998)
MAP12 LKTLTETLKELTKTLTEL (Oehlke et al. 2002)
MCoTI-I polycyclic SGSDGGVCPKILQRCRRDSDCPGACICRGNGYCG (Camarero, 2017)
MCoTI-II polycyclic CPKILKKCRRDSDCPGACICRGNGYCGSGSDGGV (Huang et al. 2015)
MFK MFKLRAKIKVRLRAKIKL (Samuels et al. 2017)
Mgpe9 CRRLRHLRHHYRRRWHRFRC (Vij et al. 2016a)
MitP INLKKLAKL(Aib)KKIL (Howl et al. 2018)
m(KLA)-iRGD klaklakklakla-K-GG-iRGD (Qifan et al. 2016)
MMGP1 MLWSASMRIFASAFSTRGLGTRMLMYCSLPSRCWRK (Pushpanathan et al. 2013)
MPER fragment ELDKWASLWNWFDITNWLWYIK (Song et al. 2009)
MPG GALFLGFLGAAGSTMGA cysteamide (Morris et al. 1997)
MPG GALFLGFLGAAGSTMGASQPKKKRKV cycteamide (Deshayes et al. 2005)
MPG-8 AFLGWLGAWGTMGWSPKKKRK (Crombez et al. 2009b)
mRVG YTIWMPENPRPGTPCDIFTKSRGKRASNGGGRRRRRRRRR (Villa-Cedillo et al. 2017)
MT23 LPKQKRRQRRRM (Zhou et al. 2017)
mtCPP1 r-Dmt-OF (Cerrato et al. 2015)
MTM AAVALLPAVLLALLAP (Fletcher et al. 2010)
MTD84 AVALVAVVAVA (Lim et al. 2014)
MTP MLSLRQSIRFFK (Chuah et al. 2015a, b)
MTS KGEGAAVLLPVLLAAPG (Zhao et al. 2001)
MTS1 AAVLLPVLLAAP (Rojas et al. 1998)
Mut3DPT-C9h VKKKKIKAEIKIYVETLDDIFEQWAHSEDL (de la Torre et al. 2017)
Myr-ApoE Myr-LRKLRKRLLR (Tajik-Ahmadabad et al. 2017)
New modalities Polycyclic, hairpin, stapled peptides for delivery (Valeur et al. 2017, Waldmann et al. 2017)
NF1 Stearyl-AGY(PO3)LLGKTNLKALAALAKKIL (Arukuusk et al. 2013)
NF51 δ-(Stearyl-AGYLLG)OINLKALAALAKKIL (Arukuusk et al. 2013)
NF55 δ-(Stearyl-AGYLLG)OINLKALAALAKAIL (Freimann et al. 2016)
NLS PKKKRKV (Yoneda et al. 1992).
NLS-StAx-h stapled RRWPRXILDXHVRRVWR (Dietrich et al. 2017)
NoLS KKRTLRKNDRKKRC (Yao et al. 2015)
Novicidin KNLRRIIRKGIHIIKKYF (Milosavljevic et al. 2016)
NPFSD VLTNENPFSDP (Gong et al. 2016)
NYAD-1 stapled ITFEDLLDYYGP (Zhang et al. 2008)
Oct4-PTD DVVRVWFCNRRQKGKR (Adachi et al. 2017)
P007 Ac-(RAhxR)4-Ahx-βAla (Greer et al. 2014)
P1 LRRWSLG (Peng et al. 2017b)
P2 WKRTLRRL (Peng et al. 2017b)
P3 YGRKKRRQR (Tan et al. 2006)
P7 RRMKWKK (Watson et al. 2017)
P11 YGRKKRRQRRR (Zhao et al. 2011)
P11 HSDVHK (Bang et al. 2011)
P11LRR P11LRR (Li et al. 2010)
P14LRR (PLPRPR)4 (Brezden et al. 2016)
p18 LSTAADMQGVVTDGMASG (Taylor et al. 2009)
P21 KRKKKGKGLGKKRDPCLRKYK (Dixon et al. 2016)
P28 LSTAADMQGVVTDGMASGLDKDYLKPDD, Leu50-Asp77 of azurin (Yamada et al. 2016)
p28 FLHSGTAVTCTYPALTPQWEGSDCTHRL (Signorelli et al. 2017)
p53 peptide MO6 Stapled TSF*EYWYLL* (Chee et al. 2014)
PAF26 Ac-rkkwfw (Lopez-Garcia et al. 2002)
PAS GKPILFF (Woldetsadik et al. 2017)
pCLIP6 KVRVRVRVpP(pT)RVRERVK (Chen et al. 2017b)
pD-SP5 riPRPSPKMGV(pS)VS (Chen et al. 2017b)
PenetraMax KWFKIQMQIRRWKNKR, L- and D- (Khafagy el et al. 2015)
Penetratin RQIKIWFQNRRMKWKK (Derossi et al. 1994)
Pep-1 KETWWETWWTEWSQPKKKRKV cysteamide (Morris et al. 1997)
pepM KLFMALVAFLRFLTIPPTAGILKRWGTI (Freire et al. 2014)
pepR LKRWGTIKKSKAINVLRGFRKEIGRMLNILNRRRR (Freire et al. 2014)
Pept1 PLILLRLLRGQF (Marks et al. 2011)
Peptide 599 GLFEAIEGFIENGWEGMIDGWYGGGGRRRRRRRRRK (Alexander-Bryant et al. 2015)
Pep42 Cyclic CTVALPGGYVRVC (Kim et al. 2006)
PepNeg SGTQEEY (Neves-Coelho et al. 2017)
PepFect6 Stearyl-AGYLLGK(εTMQ)INLKALAALAKKIL, PF6 (El-Andaloussi et al. 2011)
PepFect14 Stearyl- AGYLLGKLLOOLAAAALOOLL (Ezzat et al. 2011)
PG1 RGGRLCYCRRRFCVCVGR (Liu et al. 2013b)
pHLIP AEQNPIY-WARYADWLFTTPLLLLDLALLV-DADEGT (Andreev et al. 2010)
PHPs H6-H10 peptides (Kimura et al. 2017)
PIP1 RXRRXRRXRIKILFQNRRMKWKK (Ivanova et al. 2008)
Pip5e RXRRBRRXRILFQYRXRBRXRB (Betts et al. 2012)
Pip6a Ac-RXRRBRRXRYQFLIRXRBRXRB (Lehto et al. 2014)
POD CGGG(ARKKAAKA)4 (Dasari et al. 2017)
PR9 FFLIPKG-R9 (Liu et al. 2013a)
PTD YARVRRRGPRRR (Dong et al. 2016)
PTD3 R9-ETWWETWWTEW (Kizaka-Kondoh et al. 2009)
PTD4 YARAAARQARA (McCusker et al. 2007)
Poly-Arg Most popular R7 – R12 (Mitchell et al. 2000, Futaki, 2006)
pVEC LLIILRRRIRKQAHAHSK (Elmquist et al. 2001)
Pyrrhocoricin VDKGSYLPRPTPPRPIYNRN (Otvos et al. 2000)
R4K1 Stapled Ac-RRRRKS*LHRS*LQDS (Speltz et al. 2018)
R6dGR R6dGR (Wang et al. 2017)
R8 R8 (Wender et al. 2001)
R8-dGR R8dGR (Liu et al. 2016b)
R9-H4A2 Ac-YR9-HAHAHH (Okitsu et al. 2017)
R6W3 R6W3 (Bechara et al. 2013)
R10W6 R10W6 (Bechara et al. 2013)
RA9 RRAARRARR (Alhakamy et al. 2013)
RALA WEARLARALARALARHLARALARALRACEA (McCarthy et al. 2014)
RDP CKSVRTWNEI IPSKGCLRVG GRCHPHVNGG GRRRRRRRRC (Xiao et al. 2017)
REDV REDV (Yang et al. 2016)
RF GLKKLARLFHKLLKLGC (Yang et al. 2014)
cRGDfC Cyclic RGDfC (Wada et al. 2017)
iRGD Cyclic CRGDKGPDC (Peng and Kopecek, 2015)
RGE RGERPPR (Yu et al. 2017)
RH9 RRHHRRHRR (Alhakamy et al. 2013)
RL9 RRLLRRLRR (Alhakamy et al. 2013)
RL16 RRLRRLLRRLLRRLRR (Joanne et al. 2009)
RT53 RQIKIWFQNRRMKWKKAKLNAEKLKDFKIRLQYFARGLQV YIRQLRLALQGKT (Jagot-Lacoussiere et al. 2016)
RTP004 RKKRRQRRRG-K15-GRKKRRQRRR) (Lee et al. 2015a)
RV24 RRRRRRRRRGPGVTWTPQAWFQWV (Lo and Wang, 2012)
RVG YTIWMPENPRPGTPCDIFTNSRGKRASNG (Kumar et al. 2007)
RVG-9R YTIWMPENPRPGTPCDIFTNSRGKRASNGGGGRRRRRRRRR (Rassu et al. 2017)
RVG29 YTIWMPENPRPGTPCDIFTNSRGKRASNGGGGRRRRRRRRR (Villa-Cedillo et al. 2017)
RW9 RRWWRRWRR (Alhakamy et al. 2013)
RW16 RRWRRWWRRWWRRWRR (Jobin et al. 2013)
(RXR)4 (R-Ahx-R)4 (Saleh et al. 2010)
(rXr)4 (r-Ahx-r)4 (Vij et al. 2016b)
S155 VKKKKIKREI-KIAAQRYGRELRRMADEFHV (Haidar et al. 2017)
S4(13)-PV ALWKTLLKKVLKAPKKKRKV (Mano et al. 2007)
SAP VRLPPPVRLPPPVRLPPP (Pujals et al. 2006)
SAP(E) VELPPPVELPPPVELPPP (Martin et al. 2011)
all-D-SAP (vrlppp)3 (Pujals et al. 2007)
SAPSp-lipo stearyl-GGGGHGAHEHAGHEHAAGEHHAHE (Suzuki et al. 2017)
SAR6EW SAR6EW (Im et al. 2017)
sC18 GLRKRLRKFRNKIKEK (Oren et al. 1999)
(sC18)2 (GLRKRLRKFRNKIKEK)2 (Gronewold et al. 2017)
SMTP motif, LRLLR (Fuselier and Wimley, 2017)
SPACE Cyclic ACTGSTQHQCG (Hsu and Mitragotri, 2011)
SRCRP2-11 GRVEVLYRGSW (Tuttolomondo et al. 2017)
STR-KV H3K3V6 (Pan et al. 2016)
SS-02 Dmt-r-FK (Alta et al. 2017)
SS-20 F-r-FK (Alta et al. 2017)
SS-31 r-Dmt-KF (Zhao et al. 2005)
SynB1 RGGRLSYSRRRFSTSTGR (Rousselle et al. 2000)
T2 LVGVFH (Kumar et al. 2012)
Tat(49-57) RKKRRQRRR (Vives et al. 1997a)
Tat(48-60) GRKKRRQRRRPPQ (Vives et al. 1997b)
Tat(44-57) CGISYGRKKRRQRRR (Niesner et al. 2002)
Tat(37-72) CFITKALGISYGRKKRRQRRRPPQGSQT-HQVSLSKQ (Fawell et al. 1994)
Tat analog GRKKRRQR (Nguyen et al. 2008)
Tat-LK15 Tat-KLLKLLLKLLLKLLK (Peng et al. 2017a)
TCTP MIIFRALISHKK (Bae et al. 2016)
TD-1 ACSSSPSKHCG (Chen et al. 2006)
TD2.2 SYWYRIVLSRTGRNGRLRVGRERPVLGESP (Heffernan et al. 2012)
TH peptide GYLLGHINLHHLAHL-Aib-HHIL (Chen et al. 2017a)
TM2 PKKGSKKAVTKAQKKDGA (Kochurani et al. 2015)
Transportan GWTLNSAGYLLGKINLKALAALAKKIL, TP (Pooga et al. 1998)
TP10 AGYLLGKINLKALAALAKKIL (Soomets et al. 2000)
TPk VRRFkWWWkFLRR (Bahnsen et al. 2015)
Tpl KWCFRVCYRGICYRRCRGK (Jain et al. 2015)
TPP TKDNNLLGRFELSG (Gehrmann et al. 2014)
TT1 CKRGARSTA (Paasonen et al. 2016)
vAMP 059 INWKKWWQVFYTVV (Dias et al. 2017)
vCPP 0769 RRLTLRQLLGLGSRRRRRSR (Dias et al. 2017)
vCPP 2319 WRRRYRRWRRRRRWRRRPRR (Dias et al. 2017)
VDAC(1-26) MAVPPTYADLGKSARDVFTKGYGFGL (Smilansky et al. 2015)
VP22 NAATATRGRSAASRPTQRPRAPARSASRPRRPVQ (Elliott and O’Hare, 1997)
V peptide TVDNPASTTNKDKLFAVRK (Manosroi et al. 2014)
VT5 DPKGDPKGVTVTVTVTVTGKGDPKPD (Oehlke et al. 1997)
W(RW)4 W(RW)4 (Nasrolahi Shirazi et al. 2013)
Xentry LCLR (Montrose et al. 2014)
X-pep MAARLC (Adachi et al. 2017)
YKA YKALRISRKLAK (Desai et al. 2014)
YTA2 YTAIAWVKAFIRKLRK (Lindgren et al. 2006)
YTA4 IAWVKAFIRKLRKGPLG (Lindgren et al. 2006)
Z2 FWIGGFIKKLKRSKLA (Chen et al. 2017c)
Z3 FKIKKFIGGLWRSKLA (Chen et al. 2017c)
Z12 KRYKNRVASRKCRAKFKQLLQHYREVAAAKSSENDRLRLLLK (Derouazi et al. 2015)
ZXR-1 FKIGGFIKKLWRSKLA (Chen et al. 2017c)
[/showhide]

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How to form the fibrillary structure using beta-amyloid peptides or amylin?

Aβ-(1–42) was dissolved to 1 mM in 100% hexafluoroisopropanol, hexafluoroisopropanol was removed under vacuum, and the peptide was stored at −20 °C. For the aggregation protocols, the peptide was first resuspended in dry Me2SO (DMSO) to 5 mM. For oligomeric conditions, F-12 (without phenol red) culture media was added to bring the peptide to a final concentration of 100 μM, and the peptide was incubated at 4 °C for 24 h. For fibrillar conditions, 10 mM HCl was added to bring the peptide to a final concentration of 100 μM, and the peptide was incubated for 24 h at 37 °C.

ADDLS, amyloid-derived diffusible ligands.

Preparing human islet amyloid polypeptide (hIAPP), also known as amylin, can be challenging due to its hydrophobic amino acid residues.

Here’s an improved method for dissolving lyophilized hIAPP:

  1. Begin by dissolving lyophilized hIAPP in 80% (v/v) HFIP containing 10 mM HCl. This step ensures complete dissolution. The CD spectrum indicates the presence of a stable alpha-helical conformation, which remains so for several days.
  2. Next, remove the HFIP by lyophilization, leaving behind lyophilized hIAPP.
  3. Re-dissolve the lyophilized hIAPP in 10 mM HCl, and eliminate any insoluble components by ultracentrifugation.
  4. The resulting hIAPP solution in 10 mM HCl is ready for immediate use in experiments.

To initiate the formation of hIAPP fibrils, introduce the stock solution into the reaction buffer. Conditions for fibril formation were optimized under two pH conditions:

  • Low pH: Utilize 25 uM hIAPP in 10 mM HCl, with varying concentrations of HFIP.
  • Neutral pH: Employ 25 uM hIAPP in a 50 mM sodium phosphate buffer at pH 7.0, with varying concentrations of HFIP.

Incubate these samples at 25 °C for several hours.

Reference: JOURNAL OF BIOLOGICAL CHEMISTRY 23965, JULY 8, 2011 VOLUME 286 NUMBER 27

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