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• Protein structure
  * '''Secondary structure''' - highly regular sub-structures (''[[alpha helix]]'' and ''strands of [[beta sheet]]'') which are locally defined, meaning ... ... onfigurations of the polypeptide chain. PMID 14816373</ref> Both the alpha helix and the beta-sheet represent a way of saturating all the hydrogen bond don ...
  27 KB (4092 words) - 12:18, 4 December 2008
• Software for molecular mechanics modeling
  !align:center| Helix, loop, and side chain optimization. Fast energy minimization.
  6 KB (829 words) - 07:46, 18 August 2008
• List of protein structure prediction software
  ... , ''ab initio'' methods, secondary structure prediction, and transmembrane helix and signal peptide prediction. ==Transmembrane helix and signal peptide prediction==
  7 KB (907 words) - 11:34, 18 August 2008
• DNA
  [[Image:DNA Overview.png|thumb|220px|The structure of part of a DNA double helix]] ... ain together, and a base, which interacts with the other DNA strand in the helix. In general, a base linked to a sugar is called a [[nucleoside]] and a bas ...
  82 KB (11827 words) - 06:08, 20 August 2008
• RNA
  ... regions of an RNA molecule (that is, not involved in formation of a double helix), it can chemically attack the adjacent phosphodiester bond to cleave the ... ... ] sequence in the DNA (usually found "upstream" of a gene). The DNA double helix is unwound by the [[helicase]] activity of the enzyme. The enzyme then pro ...
  31 KB (4467 words) - 07:24, 20 August 2008
• Hydrogen bond
  ... ositions ''i'' and ''i''&nbsp;+&nbsp;3, then a [[3 10 helix|3₁₀ helix]] is formed. When two strands are
  19 KB (2877 words) - 09:05, 20 August 2008
• Ramachandran plot
  ... [[DNA clamp]] protein that is composed of both [[beta sheet]]s and [[alpha helix|alpha helices]] ([[Protein Data Bank|PDB]] ID 1AXC). Points that lie on th ... ... k/PPS95/course/3_geometry/rama.html Link to Ramachandran Plot Map of alpha-helix and beta-sheet locations]
  3 KB (423 words) - 10:58, 26 August 2008
• Secondary structure prediction
  ... or the detection of specific well-defined patterns such as [[transmembrane helix|transmembrane helices]] and [[coiled coil]]s in proteins, or canonical [[m ... ... for [[tertiary structure]]; for example, a sequence predicted as a likely helix may still be able to adopt a beta-strand conformation if it is located wit ...
  12 KB (1607 words) - 06:13, 27 August 2008
• Zincfinger
  ... each motif consists of 2 antiparallel beta-strands followed by by an alpha-helix. A single zinc ion is tetrahedrally coordinated by conserved histidine and ... ... amino acids in positions -1, 2, 3 and 6 relative to the start of the alpha-helix. Contacts mainly involve one strand of the DNA.Where proteins contain mult ...
  1 KB (188 words) - 13:25, 31 August 2008
• BTIS net : Bioinformatics centres in India
  ... nology today is as intricately entwined as like the two strands of the DNA helix. Various Genome projects including the Human Genome Project (HGP) are prod ...
  11 KB (1616 words) - 04:56, 2 September 2008
• Phylogenetic analysis
  ... the rates so that overall GC content - an important measure of DNA double helix stability - varies over time.
  25 KB (3849 words) - 07:10, 9 September 2008
• DNA binding proteins
  ... an incorporate such DNA-binding domains as the zinc finger, the helix-turn-helix, and the leucine zipper (among many others).
  1 KB (142 words) - 08:54, 10 September 2008
• Biological Structure Databases
  ... in the Protein Databank and NRL-3D database, that relates secondary (e.g. Helix, Sheet, Turn, Random Coil) and tertiary information (e.g. Solvent accessib ...
  6 KB (821 words) - 09:48, 13 September 2008
• Synthetic Biology Resources
  ... which keeps water on the outside. Furthermore, it uses a different double helix molecule to carry instructions: Rather than DNA, the Los Alamos ... he existing base pair A and T to be larger – creating an expanded double helix that glows in the dark and is unusually stable at higher temperatures. Koo ...
  56 KB (8427 words) - 17:24, 22 September 2008
• Androgen
  ... formed after ligand binding. In AR, ligand binding that induces folding of helix 12 to overlie the pocket discloses a groove that binds a region of the NTD ...
  7 KB (1027 words) - 07:00, 17 October 2008
• Progestrone
  ... : stabilization of the loop preceding the C-terminal activation function-2 helix and direct contact with the hormone ligand....
  8 KB (1073 words) - 09:35, 19 February 2009
• Cholecystokinin
  ... of amino acids, e.g., CCK58, CCK33, and CCK8. CCK58 assumes a [[helix-turn-helix]] configuration.
  7 KB (948 words) - 06:42, 11 December 2009
• Secretin
  ... s composed of 27 [[amino acids]] and has a [[molecular weight]] of 3055. A helix is formed in the amino acids between positions 5 and 13. The amino acids s ...
  12 KB (1666 words) - 08:21, 17 February 2009
• Calcitonin
  ... olecular weight of 3454.93 daltons. Its structure comprises a single alpha helix.<ref>http://www.rcsb.org/pdb/explore.do?structureId=2GLH: Structure summar ...
  13 KB (1674 words) - 09:15, 11 December 2009
• Immunotation of Rv2753c (dihydrodipicolinate synthase)
  ... ghava/tbpred/ TBpred]. HMMpfam found one domain PF00701 and has Helix Turn Helix secondary structure.
  4 KB (531 words) - 09:54, 5 January 2010

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