Tuesday, July 27, 2010

3D macromolecule..


35/99/170-loops of FXa in SGT

Authors:
Release Date: 2010-06-02 Classification: Hydrolase
Experiment: X-RAY DIFFRACTION with resolution of 2.10 Å
Compound: 1 Polymer
3 Ligands
Citation: Combinatorial Enzyme Design Probes Allostery and Cooperativity in the Trypsin Fold.
(2010) J.Mol.Biol. 399: 306-319
Molecule of the Month: Thrombin, Trypsin, Serpins, Tissue Factor, Fibrin


Combinatorial enzyme design probes allostery and cooperativity in the trypsin fold.

Page, M.J., Di Cera, E.

Journal: (2010) J.Mol.Biol. 399: 306-319

PubMed: 20399789
DOI: 10.1016/j.jmb.2010.04.024
Search Related Articles in PubMed
PubMed Abstract: Converting one enzyme into another is challenging due to the uneven distribution of important amino acids for function in both protein sequence and structure. We report a strategy for protein engineering allowing an organized mixing and matching of genetic material that leverages lower throughput with increased quality of screens. Our approach successfully tested the contribution of each surface-exposed loop in the trypsin fold alone and the cooperativity of their combinations towards building the substrate selectivity and Na(+)-dependent allosteric activation of the protease domain of human coagulation factor Xa into a bacterial trypsin. As the created proteases lack additional protein domains and protein co-factor activation mechanism requisite for the complexity of blood coagulation, they are stepping-stones towards further understanding and engineering of artificial clotting factors.

Keywords:


Related Structures:
Primary Citation of: 3I77 3I78

Organizational Affiliation:
Department of Pharmaceutical Chemistry, University of California San Francisco, San Francisco, CA, USA.

Classification: Hydrolase
Structure Weight: 24396.34

Molecule:Trypsin
Polymer:1Type:polypeptide(L)Length:230
Chains:A
EC#:3.4.21.4
Mutation:19 substitutions in the 35, 99 and 170-loops
Other Details:35/99/170-loops of FXa in SGT

Source
Polymer: 1
Scientific Name: Streptomyces griseus
Expression System: Bacillus subtilis

Authors: Page, M.J., Di Cera, E.

Deposition: 2009-07-08
Release: 2010-06-02


Method: X-RAY DIFFRACTION
Experimental Data:EDS
Resolution[Å]: 2.10
R-Value: 0.164 (obs.)
R-Free: 0.195
Space Group: I 4 2 2
Unit Cell:
Length [Å] Angles [°]
a = 138.35 α = 90.00
b = 138.35 β = 90.00
c = 81.40 γ = 90.


Sunday, July 18, 2010

=JOURNEY OF LIFE=



Each of us from time to time experience crises from different life changing events and transitions, all unpredictable moments arriving and intruding into our “well groomed” lives. We didn’t ask for this interference and we wonder why it has arrived bringing with it havoc and confusion. BUT no matter what the source, each crisis has a common bond…a threshold. A holy summons inviting us to cross a threshold involving both a leaving behind and a stepping toward.

During these times of roadblocks, dead ends and detours, we often choose to ignore that inner calling. Transformation takes an enormous amount of trust in the voice that urges us to take note. We need to pay attention and ask ourselves what is it we are being summoned to learn? Has the time arrived to push past our comfort zone and begin the slow process of transformation? Are we ready to accept responsibility for our life choices and embark on this soulful journey? Many of us have learned to be afraid of the feelings inside of ourselves. We tend to bury or ignore them. Perhaps even run from them pretending they don’t exist. We cannot deceive ourselves! Until we claim and embrace these “unwanted” pieces of our shadow, they will continue to resurface, haunting us and making their presence known, one way or another.

The invitation to re-kindle our authentic self wears many disguises and often arrives in some of the most unexpected ways and always with a revelation. Life passages can mystify and overwhelm us, causing pain and grief. It is frightening to veer off the well-worn path, better known as our “comfort zone.” But if we are willing to take the time to acknowledge and reflect on each passage, they can bestow wisdom and knowledge expanding our vision of our authenticity.

Celebrating, mourning or wrestling with a life passage is an extraordinary act. Slow down and be in touch with your feelings. Be kind and loving to yourself. Act from your spirit and heart and don’t forget to breathe!