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7 Putting genetics into optogenetics: knocking out proteins with light
7 Putting genetics into optogenetics: knocking out proteins with light

... many genetic knockouts affect multiple tissues, which can complicate the interpretation of phenotypes for any particular cell. These pleiotropies may arise from nonautonomous effects from other tissues or broad nonspecific defects, such as general ill health. Second, some genes are mutated to lethal ...
Lecture 3
Lecture 3

... Example from myoglobin structure. The kink angle is up to 20o ...
Leukaemia Section t(9;22)(q34;q11) in ANLL  Atlas of Genetics and Cytogenetics
Leukaemia Section t(9;22)(q34;q11) in ANLL Atlas of Genetics and Cytogenetics

... often between the two alternative exons 1b and 1a, sometimes 5' of 1b, or 3' of 1a, but always 5' of exon 2; Breakpoint in BCR is either (as in ALL cases): 1- in the same region as in CML, called M-bcr (for major breakpoint cluster region), a cluster of 5.8 kb, between exons 12 and 16, also called b ...
domain alignments - Oxford Academic
domain alignments - Oxford Academic

... ways. (i) When protein query sequences are submitted for BLAST searches against protein databases, the queries will be submitted to CD-Search by default, and the results—if any— will be displayed graphically on the intermediate BLAST results page. Clicking on the image will launch a browser window w ...
A protein domain interaction interface database: InterPare | BMC
A protein domain interaction interface database: InterPare | BMC

... Background: Most proteins function by interacting with other molecules. Their interaction interfaces are highly conserved throughout evolution to avoid undesirable interactions that lead to fatal disorders in cells. Rational drug discovery includes computational methods to identify the interaction s ...
Protein Creation Pathway Tutorial
Protein Creation Pathway Tutorial

... 5. In general, what are small parts of the cell called?___________________________________  ...
Notes for using PROTPOL.f
Notes for using PROTPOL.f

As listed in the Compendium of Pharmaceuticals and Specialties
As listed in the Compendium of Pharmaceuticals and Specialties

... Precautions  Each pouch of IMMUNOCAL provides 9 g of protein. Patients on a protein‐restricted diet need  to  take  this  into  account  when  calculating  their  daily  protein  load.  Although  a  bovine  milk  derivative,  IMMUNOCAL  is  well  tolerated  by  lactose‐intolerant  individuals.  IMMU ...
Atomic contacts in protein structures. A detailed analysis of atomic
Atomic contacts in protein structures. A detailed analysis of atomic

... the connectivity between atoms, and by secondary/tertiary structure restraints. To assess the relative degree of packing in native protein structures, we therefore quantified the packing efficiency, evaluated this packing score for a large number of proteins, and compared the results with a syntheti ...
View PDF - e-Science Central
View PDF - e-Science Central

... PEGs are hydrophilic, non-toxic, non-immunogenic, and relatively chemically inert polymers consisting of repetitive units of ethylene oxide. It has been approved by the FDA as “generally recognized as safe” [3]. A large number of potential PEG molecules are available in linear or branched configurat ...
Structural Studies of DsbA and its Putative Partner, VKOR, in
Structural Studies of DsbA and its Putative Partner, VKOR, in

The Right Whey Protein
The Right Whey Protein

Proteins * Structure and Function
Proteins * Structure and Function

... When more amino acids are added to a dipeptide, a polypeptide chain is formed. A protein consists of one or more polypeptide chains folded into a highly specific 3D shape. There are up to four levels of structure in a protein: primary, secondary, tertiary and quaternary. Each of these play an import ...
Task - Illustrative Mathematics
Task - Illustrative Mathematics

Application 1
Application 1

... 1. Gold coated array surface: The surface used for immobilization of the antigen of interest followed by detection using a Raman active agent (single walled carbon nanotubes, in this case) is coated with gold in order to enhance the SERS effect and provide better signal output. 2. Proteinase 3: This ...
2-D Quant Kit - GE Healthcare Life Sciences
2-D Quant Kit - GE Healthcare Life Sciences

... The accuracy of this assay is largely determined by the technique ofthe user. Careful pipetting of standard curve and sample solutions is essential. If the sample is viscous, it may be difficult to accurately pipette volumes below 10 µl. More accurate results may be obtained by diluting a concentrate ...
Week 5 - profiles, HMM
Week 5 - profiles, HMM

... •  Hidden Markov models are statistical models that were initially developed for speech recognition. •  The most popular use of HMM in molecular biology is as a ‘probabilistic profile’ of a protein family, which is called a profile HMM. •  Apart from this, HMMs are also used for multiple sequence al ...
QPrEST™—isotope-labeled multipeptide standards for
QPrEST™—isotope-labeled multipeptide standards for

... from a single standard. Furthermore, the QPrEST standard is added to the unknown sample prior to digestion, resulting in decreased variation from the proteolytic cleavage step compared to approaches using peptide standards. The presence of endogenous cleavage sites in the QPrEST enables the use of p ...
In Depth Analysis of the Spectra Unassigned by Database Search
In Depth Analysis of the Spectra Unassigned by Database Search

Protein Motif Recognition I Introduction
Protein Motif Recognition I Introduction

- computer science publication server
- computer science publication server

... from SwissProt not present in SCOP1 itself. The evaluation itself was only performed on pairs of SCOP1 sequences. Fig. 7 shows a very favorable performance of the method on this substantially larger data set. Again, we achieve a one-hundred percent speci city over a wide range of thresholds while ad ...
Protein Quality Control Mechanisms and Protein
Protein Quality Control Mechanisms and Protein

The PYRIN domain: a novel motif found in apoptosis and
The PYRIN domain: a novel motif found in apoptosis and

Biochem Review, Part I: Protein Structure and Function
Biochem Review, Part I: Protein Structure and Function

... • Tertiary structure can be complex and does not typically consist of repeating units. • A polypeptide will adopt the most stable tertiary structure In aqueous environment, this occurs when hydropobic residues are internal and hydrophilic residues are external. ...
Lesson 15. Nutrition
Lesson 15. Nutrition

... movement, the enzymes responsible for all metabolic reactions in our body, the hormones, the cellular channels, the receptors for various signaling molecules etc. In cases of energy deprivation proteins can also be broken down as a source of energy. They have a calorific value similar to carbohydrat ...
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Protein design

This article refers to rational protein design. For the broader engineering of proteins see protein engineering.Protein design is the rational design of new protein molecules to fold to a target protein structure, with the ultimate goal of designing novel function and/or behavior. Proteins can be designed from scratch (de novo design) or by making calculated variations on a known protein structure and its sequence (known as protein redesign). Rational protein design approaches make protein-sequence predictions that will fold to specific structures. These predicted sequences can then be validated experimentally through methods such as peptide synthesis, site-directed mutagenesis, or artificial gene synthesis.Rational protein design dates back to the mid-1970s, although initial protein design approaches were based mostly on sequence composition and did not account for specific interactions between side-chains at the atomic level. Recently, however, improvements in molecular force fields, protein design algorithms, and structural bioinformatics, such as libraries of amino acid conformations, have enabled the development of advanced computational protein design tools. These computational tools can make complex calculations on protein energetics and flexibility, and perform searches over enormous configuration spaces, which would be unfeasible to perform manually. Thanks to the development of computational protein design programs and important successes in the field (e.g., see examples below), rational protein design has become one of the most important tools in protein engineering.
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