X-Nico

unusual facts about Protein-protein docking



Alanna Schepartz

Her research has contributed to three different areas of chemical biology: protein-DNA recognition and transcriptional activation; the development of miniature proteins that bind specifically and with high affinity to protein and DNA; and the development of β-peptides as protein ligands and as building blocks of protein-like architectures.

Atomic mass unit

Titin, the largest known protein, has an atomic mass of 3-3.7 megadaltons (3,000,000 Da).

BEN domain

SMAR1 (Scaffold/Matrix attachment region-binding protein 1; also known as BANP), a tumour-suppressor MAR-binding protein that down-regulates Cyclin D1 expression by recruiting HDAC1-mSin3A co-repressor complex at Cyclin D1 promoter locus; SMAR1 is the target of prostaglandin A2 (PGA2) induced growth arrest.

Brandon Jacobs

On October 19, 2012, Jacobs appeared, with Pro NRG founder, Tania Patruno, to pitch the fledgling company's protein supplement/energy drink and hopefully score the venture some investment capital on episode #406 of ABC's Shark Tank.

Btz domain

In molecular biology, the Btz domain (CASC3/Barentsz eIF4AIII binding domain) is a protein domain found on CASC3 (cancer susceptibility candidate gene 3 protein) which is also known as Barentsz (Btz).

C11orf73

CRHBP is a corticotrophin releasing hormone binding protein which could possibly play a role in a signal cascade that involves or activates C11orf73.

Collagen, type I, alpha 1

A specific variation at Sp1 binding site is shown to be associated with increased risk of low bone mass and vertebral fracture, because of the changes the COL1A1 protein produced from one copy of the gene.

Complement component 5a

The latter interaction leads to receptor activation, and the transduction of the ligand binding signal across the cell plasma membrane to the cytoplasmic G protein GNAI2.

Congenital myasthenic syndrome

Another common underlying mechanism of CMS is the mutation of the rapsyn protein, coded by the RAPSN gene.

CUTL1

Researchers from the Wellcome Trust Sanger Institute reported that the mutation of CUX1 reduces the inhibitory effects of a biological inhibitor, PIK3IP1 (phosphoinositide-3-kinase interacting protein 1), resulted in higher activity of the growth promoting enzyme, phosphoinositide 3-kinase (PI3K) which leads to tumor progression.

DLGAP2

DLGAP2 has been shown to interact with DLG4, the canonical synapse marker protein, which in turn binds to N-methyld-aspartate (NMDA) receptors and Shaker-type K+ channels.

Dymeclin protein family

In molecular biology, the Dymeclin protein family is a family of proteins which includes human Dymeclin.

Dystroglycan

alpha-dystroglycan is extracellular and binds to merosin alpha-2 laminin in the basement membrane, while beta-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients.

Fibroblast growth factor receptor 4

Fibroblast growth factor receptor 4 has been shown to interact with FGF1.

Fossil Downs Station

The return of Mulla Mulla in feed with its high protein content is good for cattle and also good for the environment with its ability to stabilize soil.

Growth hormone-binding protein

Normal serum levels of growth hormone Binding Protein 3 may rule out growth hormone insensitivities, like those seen in Laron syndrome.

HindIII

They have proven to be ideal modeling systems for the study of protein-nucleic acid interactions, structure-function relationships, and the mechanism of evolution.

HisB

The hisB gene, found in the enterobacteria (such as E. coli), in Campylobacter jejuni and in Xylella/Xanthomonas encodes a protein involved in catalysis of two step in histidine biosynthesis (the sixth and eight step), namely the bifunctional Imidazoleglycerol-phosphate dehydratase/histidinol-phosphatase.

Histidine kinase

A two-component system, involving histidine kinase and a variable response regulator protein, may be critical to the virulence of some fungal strains such as Candida albicans, which is often responsible for causing candidiasis in immunocompromised persons.

Huntingtin-associated protein 1

This gene encodes a protein that interacts with huntingtin, with two cytoskeletal proteins (dynactin and pericentriolar autoantigen protein 1), and with a hepatocyte growth factor-regulated tyrosine kinase substrate (HGS).

Intracellular antibody-mediated degradation

Intracellular antibody-mediated degradation (IAMD) is a neutralization mechanism of intracellular antibody-mediated immunity whereby an effector protein, TRIM21, directs antibody bound virions to the proteasome where they are degraded.

Lobatus gallus

The cladogram was based on DNA sequences of both nuclear histone H3 and mitochondrial cytochrome-c oxidase I (COI) protein-coding gene regions.

MECP2

Human proteins MECP2 (this protein), MBD1, MBD2, MBD3, and MBD4 comprise a family of nuclear proteins related by the presence in each of a methyl-CpG binding domain (MBD).

MFN1

This protein and mitofusin 2 are homologs of the Drosophila protein fuzzy onion (Fzo).

Mir-451 microRNA

miR-451 regulates the drug-transporter protein P-glycoprotein, potentially promoting resistance to the chemotherapy drug Paclitaxel.

Mitochondrial trifunctional protein deficiency

Mutations in the HADHA and HADHB genes cause mitochondrial trifunctional protein deficiency.

Mothers against decapentaplegic homolog 1

This protein is a target for SMAD-specific E3 ubiquitin ligases, such as SMURF1 and SMURF2, and undergoes ubiquitination and proteasome-mediated degradation.

MTX1

The metaxin gene, which encodes a protein located on the outer membrane of mitochondria, is a component of the mitochondrial protein translocation apparatus.

Mycoprotein

Mycoprotein (also known as fungal protein) is defined in the Oxford English Dictionary as "the albuminoid which is the principal constituent of the protoplasm of the cell." "Myco" is from the Greek word for "fungus".

New Forest pony

DNA sequencing revealed that the affected foal was homozygous for a missense mutation in the gene encoding CLCN1, a protein which regulates the excitability of the skeletal muscle.

NOS1AP

This protein has a C-terminal PDZ-binding domain that mediates interactions with nNOS and an N-terminal phosphotyrosine binding (PTB) domain that binds to the small monomeric G protein, Dexras1.

Protein sparing

Bodybuilding and other strength training promotes the utilization and conservation of protein's amino acids in the body.

Pseudotyping

A frequently used protein is the glycoprotein G of the Vesicular stomatitis virus (VSV), short VSV-G.

PVRL1

The cytoplasmic tail of PVRL1 can bind the protein afadin which is a scaffolding protein that binds actin.

Rabies virus

The exact molecular mechanism of this transport is unknown although binding of the P protein from rabies virus to the dynein light chain protein DYNLL1 has been shown.

Reedville, Virginia

Menhaden, once caught, are cooked in large mass and processed for further use in various applications including as a protein additive for poultry feed; Tyson Foods is a large customer.

Restrictive dermopathy

Restrictive dermopathy (RD) is caused either by the loss of the gene ZMPSTE24, which encodes a protein responsible for the cleavage of farnesylated prelamin A (progerin) into mature non-farnesylated lamin, or by a mutation in the LMNA gene.

Secretomics

Bovine contaminants present a particular challenge because the protein sequences of many bovine extracellular proteins, like fibronectin and fibulin-1, are similar to the human protein sequences.

Shugoshin N terminal protein domain

Shugoshin protein is thought to act by protecting two proteins, named Rec8 and Rad21 at the centromeres from protein degradation by the enzyme, separase.

SMCR7L

The SMCR7L gene codes for a protein that has been called MiD51/MIEF1 and shown to regulate mitochondrial fission by interacting with the proteins Drp1 and FIS1.

Structural Classification of Proteins database

The "TaxId" is the taxonomy ID number; it is also a link to the NCBI taxonomy browser, which provides more information about the species to which the protein belongs.

TAL effector

TAL (transcription activator-like) effectors (often referred to as TALEs but not to be confused with the three amino acid loop extension family of proteins) are proteins secreted by Xanthomonas bacteria via their type III secretion system when they infect various plant species.

Thioflavin

The dye is widely used to visualize and quantify the presence of misfolded protein aggregates called amyloid, both in vitro and in vivo (e.g., plaques composed of amyloid beta found in the brains of Alzheimer's disease patients).

Totivirus

These open reading frames (ORFs) code for a capsid protein (CP) and an RNA-dependent RNA polymerase (RDRP).

TSP-1

Thrombospondin 1, a protein that in humans in encoded by the THBS1 gene

Von Hippel–Lindau disease

The VHL protein (pVHL) is involved in the regulation of a protein known as hypoxia inducible factor 1α (HIF1α).

Vroman effect

The Vroman effect, named after Leo Vroman, is exhibited by protein adsorption to a surface by blood serum proteins.

X-linked lymphoproliferative disease

At this position, there is a deletion in the SH2D1A gene, which codes for an SH2 domain on a signal transducing protein called SLAM-associated protein (SAP).

YopE protein domain

This particular protein domain can be referred to as a Rho GTPase-activating protein (GAP).

YPEL3

The Drosophilia Yippee protein was originally discovered in a yeast interaction trap screen when it was found to physically interact with Hyalophora cecropia Hemolin.


see also