8JST

GH11 family xylanase rMxylcd from the compost-soil metagenome

• PDB DOI: https://doi.org/10.2210/pdb8JST/pdb

• Classification: HYDROLASE
• Organism(s): compost metagenome
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-06-20 Released: 2024-06-26 
• Deposition Author(s): Wu, S.N., Zhang, N.Y., Wan, Q.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.165 
• R-Value Work: 0.163 
• R-Value Observed: 0.163 

Starting Model: experimental

Literature

GH11 family xylanase rMxylcd from the compost-soil metagenome

Wu, S.N., Wan, Q.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 21.41 kDa 
• Atom Count: 1,731 
• Modelled Residue Count: 192 
• Deposited Residue Count: 192 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Endo-beta-1,4-xylanase rMxylcd	A	192	compost metagenome	Mutation(s): 0  EC: 3.2.1.8
UniProt
Find proteins for J7GPW4 (uncultured microorganism) Explore J7GPW4  Go to UniProtKB:  J7GPW4

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL (Subject of Investigation/LOI)	B [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.165 
• R-Value Work: 0.163 
• R-Value Observed: 0.163 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.01	α = 90
b = 67.01	β = 90
c = 139.764	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-06-26 
Deposition Author(s): Wu, S.N., Zhang, N.Y., Wan, Q.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2024-06-26
  Type: Initial release
  
• Version 1.1: 2024-11-13
  Changes: Structure summary