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Topic: Tertiary structure

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  Tertiary structure - Wikipedia, the free encyclopedia
In biochemistry, the tertiary structure of a protein is its overall shape.
The tertiary structure that a protein assumes to carry out its physiological role inside a cell is known as the native state or sometimes the native conformation.
The study of protein tertiary structure is known as structural biology.
en.wikipedia.org /wiki/Tertiary_structure   (164 words)

Tertiary Structure is the folding of the total chain, the combination of the elements of secondary structure linked by turns and loops.
The tertiary structure of proteins is characterized by tightly folded structure with polar groups on the surface and non-polar groups buried.
There are a number of ways to represent the folding of a protein and the arrangement of secondary structure elements within the tertiary structure.
bmbiris.bmb.uga.edu /wampler/tutorial/prot3.html   (993 words)

 Primary structure - Wikipedia, the free encyclopedia
A protein primary structure is a chain of amino acids.
In biochemistry, the primary structure of an unbranched biopolymer, such as a molecule of DNA, RNA or protein, is the specific nucleotide or peptide sequence from the beginning to the end of the molecule.
However, knowing the structure of a similar homologous sequence (for example a member of the same protein family) can unambiguously identify the tertiary structure of the given sequence.
en.wikipedia.org /wiki/Primary_structure   (146 words)

 PPS 96' - Tertiary Structure: Overview of Terminology
Secondary structure is defined by the phi and psi angles of the backbone atoms of the amino acid residues, and the hydrogen bonds between main chain atoms.
Classic units of supersecondary structure include the alpha-alpha unit (two antiparallel alpha-helices joined by a 'hairpin' bend changing the chain direction by 180°); the beta-beta unit (two antiparallel strands connected by a hairpin); and the beta-alpha-beta unit (two parallel strands, separated by an alpha-helix antiparallel to them, with 2 hairpins separating the three secondary structures).
Quaternary structure is the subject of a later chapter of the course.
www.cryst.bbk.ac.uk /PPS2/course/section9/9_term.html   (1257 words)

 Large Molecules Problem Set
Tertiary structure refers to the overall folding of the entire polypeptide chain into a specific 3D shape.
The tertiary structure of enzymes is often a compact, globular shape.
Tertiary structure of the triose phosphate isomerase (TPI) molecule.
www.biology.arizona.edu /biochemistry/problem_sets/large_molecules/03t.html   (280 words)

 Tertiary Structure   (Site not responding. Last check: 2007-11-06)
Tertiary structure refers to the three-dimensional structure of the entire polypeptide chain.
Davies) represent the tertiary structure of the antigen-binding portion of an antibody molecule.
A mutation in the gene encoding a protein is a frequent cause of altered tertiary structure.
users.rcn.com /jkimball.ma.ultranet/BiologyPages/T/TertiaryStructure.html   (800 words)

Tertiary structure is the "global" folding of a single polypeptide chain.
A major driving force in dertemining the tertiary structure of globular proteins is the hydrophobic effect.
The polypeptide chain folds such that the side chains of the nonpolar amino acids are "hidden" within the structure and the side chains of the polar residues are exposed on the outer surface.
webhost.bridgew.edu /fgorga/proteins/proteins.htm   (423 words)

 TERTIARY STRUCTURE FACTS AND INFORMATION   (Site not responding. Last check: 2007-11-06)
The tertiary structure that a protein assumes to carry out its physiological role inside a cell is known as the native_state or sometimes the native conformation.
An important type of chemical_bond involved in stabilizing the tertiary structure of many proteins is the disulfide_bond.
The study of protein tertiary structure is known as structural_biology.
www.19gmarketinggroup.com /tertiary_structure   (141 words)

 Tag tertiary-structure   (Site not responding. Last check: 2007-11-06)
The growing database of RNA structures, coupled with efforts directed at the standardization of nomenclature and classification of motifs, has resulted in the identification and characterization of numerous RNA secondary and tertiary structure motifs.
The balance between the views of RNA structure either as strictly a construct of preformed building blocks linked in a limited number of ways or as a flexible polymer assuming a global fold influenced by its environment will be the focus of current and future RNA structural biology.
Structure of a purine-purine wobble base pair in the decoding center of the ribosome. /tag?tag=tertiary-structure   (2849 words)

 Modeling of protein tertiary structure
Prediction of tertiary structure from sequence has been the goal of much research, but there is still no prediction method that can be applied successfully to any sequence.
The sequence of the unknown protein is used for secondary structure prediction and the sequence and predicted secondary structure is transformed into a similar simplified linear description.
The energy of the native structure is not necessarily much lower than that of other folds, since it is the result of a folding process, and the kinetics of the folding might be of importance for the final conformation.
xray.bmc.uu.se /~lars/biowww/Tertstrpred.html   (2420 words)

 Tertiary Structure
The tertiary structure of a protein is a description of the complex and irregular folding of the peptide chain in three dimensions.
As was the case with the secondary structure, the tertiary structure can be altered by a number of factors that will interfere with the molecular processes that hold the structure together.
The secondary, tertiary and quaternary structures, and therefore the activity, of a protein are as a direct result of the primary structure.
www.austin.cc.tx.us /emeyerth/tertiary.htm   (1859 words)

 4 Tertiary Protein Structure and folds
Tertiary structure describes the folding of the polypeptide chain to assemble the different secondary structure elements in a particular arrangement.
The introduction of the term "super-secondary structure" was necessary when it became clear that certain arrangements of two or three secondary structures are present in many different protein structures, even with completely different sequences.
This constitutes the structure of the small (63 residue) RNA-binding protein Rop, which is found in certain plasmids (small circular molecules of double-stranded DNA occurring in bacteria and yeast) and involved in their replication.
swissmodel.expasy.org /course/text/chapter4.htm   (2238 words)

 Tertiary structure
A ribbon representation of the tertiary structure of the enzyme Aspartate Transcarbamylase is shown.
A ribbon representation of the tertiary structure of the redox protein Flavodoxin is shown.
A ribbon representation of the tertiary structure of the snake venom Erabutoxin is shown.
www.cmbi.kun.nl /gvteach/alg/protstruc/tert.shtml   (382 words)

 Tertiary structure (from protein) --¬† Encyclop√¶dia Britannica
The tertiary structure is the product of the interaction between the side chains (R) of the amino acids composing the protein.
Information on the internal structure of proteins can be obtained with chemical methods that reveal whether certain groups are present on the surface of the protein molecule and thus able to react or whether they are buried inside the closely folded peptide chains and thus are unable to react.
This sequence, known as its primary structure, determines the shape and function of the protein.
www.britannica.com /eb/article-72528?tocId=72528   (902 words)

 Tertiary Structure
The tertiary structure of a protein refers to the way the secondary structure folds back upon itself or twists around to form a three-dimensional structure.
Bonds between the side groups of the amino acid residues are responsible for holding together the tertiary structure of this protein.
In summary, the tertiary structure of a protein is held together by the bonds formed by the side groups, and there is quite a variety of different bonds that can cause the tertiary structure to form.
dl.clackamas.cc.or.us /ch106-08/tertiary.htm   (324 words)

 protein structure glossary
The conformation into which a protein “folds.” For proteins consisting of only one polypeptide chain, it is the tertiary structure that is usually referred to by the term “the 3D structure of a protein.
The stated goal of structural genomics, as a field, involves generating a set of structures representative of most of the possible folds for specific protein domains and then solving the structures for new proteins based on known fold- structure relationships.
Structure determination is easiest for single- domain proteins (and these are many of the ones that have been solved).
www.genomicglossaries.com /content/protein_structure_glossary.asp   (2739 words)

 Dr Chromo's school: protein structure and diversity
The primary structure of a protein is its amino acid sequence and the disulphide bridges, i.e.
Beta - pleated sheets: the amino acids adopt the conformation of a sheet of paper and the structure is stabilized by hydrogen bonds between amino acids in different polypeptide strands.
The tertiary structure (or conformation) is the way random coils, alpha -helixes and beta -pleated sheets fold in respect to each other, ie it refers to the protein as a whole.
www.rothamsted.bbsrc.ac.uk /notebook/courses/guide/prot.htm   (541 words)

 SECONDARY AND TERTIARY STRUCTURE PREDICTION   (Site not responding. Last check: 2007-11-06)
GOR1-GARNIER (GOR1) SECONDARY STRUCTURE PREDICTION METHOD: Four-state predictions, in which each residue is unambiguously assigned one conformational state of a-helix, extended chain, reverse turn or coil, predict 49% of residue states correctly (in a sample of 26 proteins) when the overall helix and extended-chain content is not taken into account.
PSIpred The PSIpred protein structure prediction server allows you to submit a protein sequence, perform a prediction of your choice and receive the results of the prediction via E-mail.
The secondary structure prediction method is rated at 72.1% average accuracy for water-soluble globular proteins, in the three states helix, strand, and loop.
www.rna.icmb.utexas.edu /linxs/seq-info/proteins/secondary.html   (686 words)

 Coupled prediction of protein secondary and tertiary structure -- Meiler and Baker 100 (21): 12105 -- Proceedings of ...
The native structures are shown in the first row and are shown from the N terminus (blue) to the C terminus (red).
In the second row, the predicted secondary structure from sequence-only prediction is shown, with predicted helix (red), predicted sheet (blue), and predicted coil (green).
to be the spatial inverse of the native structure.
www.pnas.org /cgi/content/full/100/21/12105   (3921 words)

 ARS | Publication request: Modeling the Tertiary Structure of a Maize (Zea Mays Ssp. Mays) Non-Symbiotic Hemoglobin
The tertiary structure of soybean Lba predicted by our method and the solved (known) structures of native soybean Lba were similar, indicating that the computer methods used in this work could be useful for predicting the tertiary structures of other plant Hbs.
Our predicted tertiary structure of Hbm indicated that it was very similar to the known structure of rice Hb1 and could be thus expected to share similar properties.
The tertiary structures of predicted and native Lba are similar, indicating that the computer methods used in this work are useful tools for predicting tertiary structures of plant Hbs.
www.ars.usda.gov /research/publications/publications.htm?seq_no_115=167535   (595 words)

Tertiary structure refers to the complete three-dimensional structure of the polypeptide units of a given protein.
Structural complexes involving protein associated with lipid via noncovalent interactions are termed lipoproteins.
This change of a single amino acid alters the structure of hemoglobin molecules in such a way that the deoxygenated proteins polymerize and precipitate within the erythrocyte, leading to their characteristic sickle shape.
www.med.unibs.it /~marchesi/proteins.html   (1338 words)

 Protein Tertiary Structure Prediction using KONF90, PSA/GAc, and NetSolve
Protein is a substance directly connected to the biological phenomena and its biological functions are said to be derived from its tertiary structure.
Thus, clarification of its tertiary structure leads to an explanation of the biological phenomena process.
The tertiary structure of the protein is believed to correspond to the conformation with the lowest residual potential energy.
icl.cs.utk.edu /netsolvedev/applications/gac.html   (214 words)

 Using Computers to Study Molecular Structure   (Site not responding. Last check: 2007-11-06)
To study tertiary structure, you'll examine the enzyme lysozyme.
These are covalent bonds that link distant parts of the protein primary structure, and are common in extracellular proteins.
The tertiary structure of an enzyme is integral to its ability to bind with specific substrates.
www.biology.arizona.edu /biochemistry/activities/molecular_structure/tertiary_structure.html   (245 words)

 Investigating proteins - working out tertiary structure   (Site not responding. Last check: 2007-11-06)
Until quite recently scientists have only been able to investigate the 3D structures of molecules when they are packed together in crystals.
For a protein this means they can work out the tertiary structure of its molecules when packed together in crystals.
Scientists have been able to use nmr to work out the tertiary structure of proteins that are difficult to crystallise, and so cannot be subjected to X-ray crystallography.
www.schoolscience.co.uk /content/5/chemistry/proteins/Protch8pg4.html   (570 words)

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