Trolistni čvorni sklop

Trolistni čvorni sklop je proteinsko savijanje u kome je proteinska osnova savijena u obliku trolistnog čvora. "Plitki" čvorovi u kojima rep polipeptidnog lanca prolazi kroz petlju sa samo nekoliko ostataka su retki, dok su "duboki" čvorovi kod kojih mnogi ostaci prolaze kroz petlju ekstremno retki. Duboki trolistni čvorovi su prisutni u SPOUT superfamiliji u kojoj su metiltransferazni proteini koji učestvuju u posttranskriptionim RNK modifikacijama kod sva tri domena živih bića, uključujući bakteriju Thermus thermophilus i proteine kod arheja i eukariota^ .

Trolistni čvor u RNK metiltransferaznom domenu (1IPA​) bakterije Thermus thermophilus. C-terminus proteina je obojen plavo.

Reference

1. ^ Zarembinski TI, Kim Y, Peterson K, Christendat D, Dharamsi A, Arrowsmith CH, Edwards AM, Joachimiak A. (2003). Deep trefoil knot implicated in RNA binding found in an archaebacterial protein. Proteins 50(2):177-83.
2. ^ Nureki O, Shirouzu M, Hashimoto K, Ishitani R, Terada T, Tamakoshi M, Oshima T, Chijimatsu M, Takio K, Vassylyev DG, Shibata T, Inoue Y, Kuramitsu S, Yokoyama S. (2002). An enzyme with a deep trefoil knot for the active-site architecture. Acta Crystallogr D Biol Crystallogr 58(Pt 7):1129-37.
3. ^ Nureki O, Watanabe K, Fukai S, Ishii R, Endo Y, Hori H, Yokoyama S. (2004). Deep knot structure for construction of active site and cofactor binding site of tRNA modification enzyme. Structure 12(4):593-602.
4. ^ Leulliot N, Bohnsack MT, Graille M, Tollervey D, Van Tilbeurgh H.(2008). The yeast ribosome synthesis factor Emg1 is a novel member of the superfamily of alpha/beta knot fold methyltransferases. Nucleic Acids Res 36(2):629-39.
5. ^ Tkaczuk KL, Dunin-Horkawicz S, Purta E, Bujnicki JM. (2007). Structural and evolutionary bioinformatics of the SPOUT superfamily of methyltransferases. BMC Bioinformatics. 8:73.
6. ^ Mallam AL, Jackson SE. (2006). Probing nature's knots: the folding pathway of a knotted homodimeric protein. J Mol Biol 359(5):1420-36.
7. ^ Khatib F, Weirauch MT, Rohl CA. (2006). Rapid knot detection and application to protein structure prediction. Bioinformatics 22(14):e252-9.
8. ^ Lai YL, Yen SC, Yu SH, Hwang JK (2007). pKNOT: the protein KNOT web server. Nucleic Acids Research 35:W420-424.
9. ^ (Jerome Gracy and Laurent Chiche (2010). Optimizing structural modeling for a specific protein scaffold: knottins or inhibitor cystine knots. BMC Bioinformatics. 11:535).

Spoljašnje veze

• SCOP alpha/beta knot fold
• CATH alpha/beta knot topology
• pKNOT the web server to detect knots in proteins