6JMB | pdb_00006jmb

Crystal structure of Ostrinia furnacalis Group IV chitinase in complex with allosamidin

• PDB DOI: https://doi.org/10.2210/pdb6JMB/pdb

• Classification: HYDROLASE
• Organism(s): Ostrinia furnacalis
• Expression System: Pichia
• Mutation(s): No 


• Deposited: 2019-03-07 Released: 2020-03-11 
• Deposition Author(s): Liu, T., Yang, Q.
• Funding Organization(s): National Natural Science Foundation of China

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.39 Å
• R-Value Free: 
  0.160 (Depositor), 0.160 (DCC) 
• R-Value Work: 
  0.149 (Depositor), 0.150 (DCC) 
• R-Value Observed: 
  0.150 (Depositor) 

Starting Model: experimental

Literature

Structure and property of group IV insect chitinase, a potential drug target and biopesticide

Liu, T., Guo, X., Bu, Y., Zhou, Y., Duan, Y., Yang, Q.

(2020) Insect Biochem Mol Biol 119

• DOI: https://doi.org/10.1016/j.ibmb.2020.103326

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 44.58 kDa 
• Atom Count: 3,282 
• Modeled Residue Count: 374 
• Deposited Residue Count: 393 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ofchtiv-allosamidin	A	393	Ostrinia furnacalis	Mutation(s): 0  EC: 3.2.1.14
UniProt
Find proteins for A0A482LWB1 (Ostrinia furnacalis) Explore A0A482LWB1  Go to UniProtKB:  A0A482LWB1

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-allopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-allopyranose	B	2		N/A
Glycosylation Resources
GlyTouCan:  G77950XB GlyCosmos:  G77950XB

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
AMI	C [auth A]	ALLOSAMIZOLINE C9 H16 N2 O4 MKJAYSJDHSEFRI-PVFLNQBWSA-N

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_000468	B	Allosamidin	Oligosaccharide / Inhibitor

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.39 Å
• R-Value Free:  0.160 (Depositor), 0.160 (DCC) 
• R-Value Work:  0.149 (Depositor), 0.150 (DCC) 
• R-Value Observed: 0.150 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.625	α = 90
b = 71.707	β = 90
c = 72.155	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-03-11 
Deposition Author(s): Liu, T., Yang, Q.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China	China	31425021

Revision History  

• Version 1.0: 2020-03-11
  Type: Initial release
  
• Version 1.1: 2020-04-22
  Changes: Database references
• Version 2.0: 2022-04-13
  Changes: Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Structure summary
• Version 2.1: 2023-11-22
  Changes: Data collection, Refinement description
• Version 2.2: 2024-11-13
  Changes: Structure summary