Biomolecular Function Discovery

Covariant Conservation Laws and the Spin Hall Effect in Dirac-Rashba Systems

We present a theoretical analysis of two-dimensional Dirac-Rashba systems in the presence of disorder and external perturbations. We unveil a set of exact symmetry relations (Ward identities) that impose strong constraints on the spin dynamics of Dirac fermions subject to proximity-induced interactions. This allows us to demonstrate that an arbitrary dilute concentration of scalar impurities results in the total suppression of nonequilibrium spin Hall currents when only Rashba spin-orbit coupling is present.

type: 
Journal Paper
journal: 
Physical Review Letters, Vol. 119, Issue 24, 14 Dec 2017, doi: 10.1103/PhysRevLett.119.246801
Url: 
https://journals.aps.org/prl/abstract/10.1103/PhysRevLett.119.246801
Impact Factor: 
8.462

An Intramolecular Tryptophan-Condensation Approach for Peptide Stapling

Stapled peptides are gaining tremendous interest as next-generation therapeutic agents to target protein-protein interactions. Herein, we report an intramolecular peptide stapling method which links two tryptophan residues at C2 position of the indole moieties via acid-mediated condensation with an aldehyde.

type: 
Journal Paper
journal: 
Organic & Biomolecular Chemistry, 2017, doi: 10.1039/C7OB02667F
Url: 
http://pubs.rsc.org/en/content/articlelanding/2017/ob/c7ob02667f#!divAbstract
Impact Factor: 
3.564
Date of acceptance: 
2017-12-07

Inter-Species Host Gene Expression Differences in Response to Human and Avian Influenza A Virus Strains

Low pathogenic avian influenza (LPAI) viruses are a source of sporadic human infections and could also contribute to future pandemic outbreaks but little is known about inter-species differences in the host responses to these viruses. Here, we studied host gene expression signatures of cell lines from three species (human, chicken, and canine) in response to six different viruses (H1N1/WSN, H5N2/F59, H5N2/F118, H5N2/F189, H5N3 and H9N2).

type: 
Journal Paper
journal: 
International Journal of Molecular Sciences, Vol. 18, Issue 11, doi: 10.3390/ijms18112295
pubmed: 
29104227
Url: 
https://www.ncbi.nlm.nih.gov/pubmed/29104227
Impact Factor: 
3.226
Date of acceptance: 
2017-10-25

HIV-1 subtype CRF01_AE and B differ in utilization of low levels of CCR5, Maraviroc susceptibility and potential N-glycosylation sites

HIV subtypes not only predominate in different geographical regions but also differ in key phenotypic characteristics. To determine if genotypic and/or phenotypic differences in the Envelope (Env) glycoprotein can explain subtype related differences, we cloned 37 full length Envs from Subtype B and AE HIV infected individuals from Singapore. Our data demonstrates that CRF01_AE Envs have lower Potential N Glycosylation Sites and higher risk of ×4 development. Phenotypically, CRF01_AE were less infectious than subtype B Envs in cells expressing low levels of CCR5.

type: 
Journal Paper
journal: 
Virology, 512, 2017 December, Pg 222-233, doi: 10.1016/j.virol.2017.09.02
pubmed: 
29020646
Url: 
https://www.ncbi.nlm.nih.gov/pubmed/29020646
Impact Factor: 
3.353
Date of acceptance: 
2017-09-30

Novel insights into the vancomycin-resistant Enterococcus faecalis (V583) alkylhydroperoxide reductase subunit F

The ability of the vancomycin-resistant Enterococcus faecalis (V583) to restore redox homeostasis via antioxidant defense mechanism is of importance, and knowledge into this defense is essential to understand its antibiotic-resistance and survival in hosts. The flavoprotein disulfide reductase AhpR, composed of the subunits AhpC and AhpF, represents one such vital part. Circular permutation was found to be a feature of the AhpF protein family. E.

type: 
Journal Paper
journal: 
Biochimica et Biophysica Acta (BBA), 2017 Sep 19, doi: 10.1016/j.bbagen.2017.09.011
pubmed: 
28935609
Url: 
https://www.ncbi.nlm.nih.gov/pubmed/28935609
Impact Factor: 
4.702
Date of acceptance: 
2017-09-15

Prenylation of Viral Proteins by Enzymes of the Host: Virus-Driven Rationale for Therapy With Statins and FT/GGT1 Inhibitors

Intracellular bacteria were recently shown to employ eukaryotic prenylation system for modifying activity and ensuring proper intracellular localization of their own proteins. Following the same logic, the proteins of viruses may also serve as prenylation substrates.

type: 
Journal Paper
journal: 
BioEssays, 2017 Oct;39(10). doi: 10.1002/bies.201700014
pubmed: 
28885709
Url: 
https://www.ncbi.nlm.nih.gov/pubmed/28885709
Impact Factor: 
4.441

Post-translational Regulation of Radioactive Iodine Therapy Response in Papillary Thyroid Carcinoma

Background
Radioactive iodine (RAI) is the mainstay of treatment for differentiated thyroid carcinoma (DTC). Nevertheless, the mechanism of RAI resistance that occurs in many patients with DTC remains unknown. We aimed to elucidate the role of post-translational regulation of radioiodine uptake.

Methods

type: 
Journal Paper
journal: 
JNCI: Journal of the national Cancer Institute, 2017, Vol. 109, Issue 12, 1 Dec 2017, doi: 10.1093/jnci/djx092
Url: 
https://academic.oup.com/jnci/article-abstract/109/12/djx092/4108088?redirectedFrom=fulltext
Impact Factor: 
12.589
Date of acceptance: 
2017-04-20

Genome-wide Analysis of Protein-Coding Variants in Leprosy

Although genome-wide association studies (GWAS) have greatly advanced our understanding on the contribution of common non-coding variants to leprosy susceptibility, protein-coding variants have not been systematically investigated. We carried out a three-stage genome-wide association study of protein-coding variants in 7,048 leprosy patients and 14,398 healthy controls of Han Chinese.

type: 
Journal Paper
journal: 
Journal of Investigative Dermatology, 2017, Aug 22, doi: 10.1016/j.jid.2017.08.004
pubmed: 
28842327
Url: 
http://www.jidonline.org/article/S0022-202X(17)32793-8/pdf
Impact Factor: 
6.287

Charged residues next to transmembrane regions revisited: "Positive-inside rule" is complemented by the "negative inside depletion/outside enrichment rule"

BACKGROUND:
Transmembrane helices (TMHs) frequently occur amongst protein architectures as means for proteins to attach to or embed into biological membranes. Physical constraints such as the membrane's hydrophobicity and electrostatic potential apply uniform requirements to TMHs and their flanking regions; consequently, they are mirrored in their sequence patterns (in addition to TMHs being a span of generally hydrophobic residues) on top of variations enforced by the specific protein's biological functions.

RESULTS:

type: 
Journal Paper
journal: 
BMC Biology 2017 Jul 24;15(1):66. doi: 10.1186/s12915-017-0404-4
pubmed: 
28738801
Url: 
https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-017-0404-4
Impact Factor: 
6.779
Date of acceptance: 
2017-08-07

Benchmarking selected computational gene network growing tools in context of virus-host interactions

Several available online tools provide network growing functions where an algorithm utilizing different data sources suggests additional genes/proteins that should connect an input gene set into functionally meaningful networks. Using the well-studied system of influenza host interactions, we compare the network growing function of two free tools GeneMANIA and STRING and the commercial IPA for their performance of recovering known influenza A virus host factors previously identified from siRNA screens.

type: 
Journal Paper
journal: 
Scientific Reports, 2017 Jul 19;7(1):5805. doi: 10.1038/s41598-017-06020-6
pubmed: 
28724991
Url: 
https://www.ncbi.nlm.nih.gov/pubmed/28724991
Impact Factor: 
4.259
Date of acceptance: 
2017-06-07
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