Structural studies of a two-domain chitinase from Streptomyces griseus HUT6037

Journal of Molecular Biology
Yuichiro KezukaT Nonaka

Abstract

Chitinase C (ChiC) from Streptomyces griseus HUT6037 was the first glycoside hydrolase family 19 chitinase that was found in an organism other than higher plants. An N-terminal chitin-binding domain and a C-terminal catalytic domain connected by a linker peptide constitute ChiC. We determined the crystal structure of full-length ChiC, which is the only representative of the two-domain chitinases in the family. The catalytic domain has an alpha-helix-rich fold with a deep cleft containing a catalytic site, and lacks three loops on the domain surface compared with the catalytic domain of plant chitinases. The chitin-binding domain is an all-beta protein with two tryptophan residues (Trp59 and Trp60) aligned on the surface. We suggest the binding mechanism of tri-N-acetylchitotriose onto the chitin-binding domain on the basis of molecular dynamics (MD) simulations. In this mechanism, the ligand molecule binds well on the surface-exposed binding site through two stacking interactions and two hydrogen bonds and only Trp59 and Trp60 are involved in the binding. Furthermore, the flexibility of the Trp60 side-chain, which may be involved in adjusting the binding surface to fit the surface of crystalline chitin by the rotation of chi2 a...Continue Reading

References

Aug 1, 1975·Biopolymers·K H Gardner, J Blackwell
Apr 18, 1967·Proceedings of the Royal Society of London. Series B, Containing Papers of a Biological Character·C C BlakeV R Sarma
Apr 28, 1968·Journal of Molecular Biology·B W Matthews
Jan 1, 1993·The Plant Journal : for Cell and Molecular Biology·D B CollingeK Vad
Sep 15, 1995·Structure·G Davies, B Henrissat
Nov 1, 1995·Protein Science : a Publication of the Protein Society·C N PaceT Gray
Mar 11, 1996·FEBS Letters·B IseliB Henrissat
Feb 1, 1996·Journal of Molecular Graphics·W HumphreyK Schulten
May 16, 1998·Proceedings of the National Academy of Sciences of the United States of America·K A Brameld, W A Goddard
Oct 3, 1998·Acta Crystallographica. Section D, Biological Crystallography·A T BrüngerG L Warren
May 29, 1999·Applied and Environmental Microbiology·M T CottrellD L Kirchman
Oct 26, 1999·Acta Crystallographica. Section D, Biological Crystallography·H R Powell
Feb 10, 2000·Acta Crystallographica. Section D, Biological Crystallography·S D Knight
May 24, 2000·Proceedings of the National Academy of Sciences of the United States of America·D M van AaltenR K Wierenga
Aug 25, 2000·Acta Crystallographica. Section D, Biological Crystallography·M HahnW Höhne
Jul 1, 1963·Journal of Molecular Biology·G N RAMACHANDRANV SASISEKHARAN
Jun 25, 2004·The Biochemical Journal·Alisdair B BorastonGideon J Davies
Sep 1, 1994·Acta Crystallographica. Section D, Biological Crystallography·UNKNOWN Collaborative Computational Project, Number 4
Jan 1, 1993·Acta Crystallographica. Section D, Biological Crystallography·V S Lamzin, K S Wilson
Mar 1, 1996·Acta Crystallographica. Section D, Biological Crystallography·H K Song, S W Suh
Jul 1, 1997·Acta Crystallographica. Section D, Biological Crystallography·J P Abrahams
May 1, 1997·Acta Crystallographica. Section D, Biological Crystallography·G N MurshudovE J Dodson

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Citations

Apr 7, 2006·Applied Microbiology and Biotechnology·Yoshikane ItohTakeshi Watanabe
May 6, 2008·Acta Crystallographica. Section F, Structural Biology and Crystallization Communications·Joëlle HuetRené Wintjens
Mar 28, 2012·Bioscience, Biotechnology, and Biochemistry·Fumiya UniSatoshi Nakamura
Apr 5, 2014·Acta Crystallographica. Section D, Biological Crystallography·Lei ChenQing Yang
Jul 25, 2009·Plant Molecular Biology·Wimal UbhayasekeraSherry L Mowbray
Feb 24, 2011·Microbial Biotechnology·Juan F MartínAntonio Rodríguez-García
Nov 6, 2013·Ecology Letters·Martin HeilAles Svatos
Nov 28, 2007·Biochemical and Biophysical Research Communications·Takamitsu HattoriIzumi Kumagai
Jul 26, 2018·Bioscience Reports·Ayokunmi Oyeleye, Yahaya M Normi
Nov 2, 2019·Genome Biology and Evolution·Weifang LiaoLihong Miao
Apr 3, 2020·FEMS Microbiology Letters·Daisuke NikiJiro Arima
Aug 30, 2013·The Journal of Biological Chemistry·Shoko ShinyaTamo Fukamizo
Dec 10, 2013·Acta Crystallographica. Section F, Structural Biology and Crystallization Communications·Takayuki OhnumaTomoyuki Numata
Jun 23, 2018·Applied Microbiology and Biotechnology·Marie-Ève Lacombe-HarveyCarole Beaulieu

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