A novel structure simulation and catalytic sites prediction for Gibberellin 20 oxidase G‚‚‚O

Chan Mun Yee, . and Ong Lisa Gaik Ai, . and Teo Kah Cheng, . and Lee Boon Hoor, . and Chin Hong Soon, . and Goh Khang Wen, . (2011) A novel structure simulation and catalytic sites prediction for Gibberellin 20 oxidase G‚‚‚O. [Proceedings Paper]

Gibberellin 20 Oxidase G‚‚oO and leucoanthocyanidin dioxygenase LDOX are categorized under the same superfamily which is non heme iron dependent oxygenase and oxidase NHIDOX family. The 3D structure of G‚‚oO of A. thaliana was generated by its protein primary sequence via computational approach. The simulated structure was validated G-factor -0.24. The amino acid residues involved in A. thaliana putative G‚‚oO 3D structure catalytic site was predicted by using LDOX x-ray crystal structure as a reference via superimposition and docking method. Despite LDOXs and G‚‚oO from selected species have low similarity -25 both proteins possess similar percentage of secondary features and similar 3D structure. The superimposition and docking were performed properly as the Root Mean Square RMS value was 0.44 thus the amino acid residues predicted involved in catalytic site are correct and accurate.

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Abstract

Gibberellin 20 Oxidase G‚‚oO and leucoanthocyanidin dioxygenase LDOX are categorized under the same superfamily which is non heme iron dependent oxygenase and oxidase NHIDOX family. The 3D structure of G‚‚oO of A. thaliana was generated by its protein primary sequence via computational approach. The simulated structure was validated G-factor -0.24. The amino acid residues involved in A. thaliana putative G‚‚oO 3D structure catalytic site was predicted by using LDOX x-ray crystal structure as a reference via superimposition and docking method. Despite LDOXs and G‚‚oO from selected species have low similarity -25 both proteins possess similar percentage of secondary features and similar 3D structure. The superimposition and docking were performed properly as the Root Mean Square RMS value was 0.44 thus the amino acid residues predicted involved in catalytic site are correct and accurate.

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Item Type:	Proceedings Paper
Additional Information:	Available at Perpustakaan Sultan Abdul Samad Universiti Putra Malaysia 43400 UPM Serdang Selangor Malaysia. QR22 M3I61 2011 vol.2 Call Number.
AGROVOC Term:	Proteins
AGROVOC Term:	Gibberellins
AGROVOC Term:	Amino acid sequences
AGROVOC Term:	Catalytic activity
AGROVOC Term:	Biosynthesis
AGROVOC Term:	Plant hormones
AGROVOC Term:	Flavonoids
AGROVOC Term:	Microstructure morphology
Geographical Term:	MALAYSIA
Depositing User:	Ms. Suzila Mohamad Kasim
Last Modified:	24 Apr 2025 05:15
URI:	http://webagris.upm.edu.my/id/eprint/13087

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