Protein Structure Fall 2011 Aaron Zampaglione. Protein Fold Rossmann Fold

Protein StructureFall 2011

Aaron Zampaglione

Protein Fold

Rossmann Fold

Protein Domains (Folds)

Four main classes:

All-α

All-β

α+β

α/β

(Membrane and cell surface proteins and peptides)

(Small proteins)

All-α

The lone helix

The helix-turn-helix motif

The four-helix bundle

Helix-helix packing

All-β

β sandwiches and β barrels

Up-and-down antiparallel β sheets

β-propellors

β-trefoils

β-Helix

α+β

Bacterial and mammalian pancreatic ribonucleases

Lysozome

Ubiquitin

α/β

α/βhorseshoe

α/βbarrels

beta-alpha-beta

Motif

Structural Motifs

β-α-β

β-hairpin

Greek Key

Helix-Loop-Helix (HLH)

Helix-Turn-Helix (HTH)

Leucine Zipper

Psi-loop

Zinc Finger

β-α-β Motif

β-hairpin Motif

Greek Key Motif

Helix-Loop-Helix (HLH) Motif

Helix-Turn-Helix (HTH) Motif

Leucine Zipper Motif

Psi-loop Motif

Zinc Finger Motif

Biology Workbench

Protein Tools

Alignment Tools

Structure Tools

http://workbench.sdsc.edu

Additional Tools

CDART (Motifs) http://www.ncbi.nlm.nih.gov/Structure/lexington/lexington.cgi

?cmd=rps

PROSITE (Motifs) http://prosite.expasy.org/cgi-bin/prosite/prosite-list.pl

SCOP (Structure) http://scop.mrc-lmb.cam.ac.uk/scop

CATH (Structure) http://www.cathdb.info

References

Expasy. (1999). Tertiary Protein Structure and folds. Retrieved 08 30, 2011, from Expasy: http://swissmodel.expasy.org/course/text/chapter4.htm

Karadaghi, S. (2011). Protein Domains. Retrieved 08 30, 2011, from Protein Structures: http://www.proteinstructures.com/Structure/Structure/protein-domains.html

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