9G5N | pdb_00009g5n

Xylose Isomerase collected at 20C using serial fixed-target crystallography

• PDB DOI: https://doi.org/10.2210/pdb9G5N/pdb

• Classification: ISOMERASE
• Organism(s): Streptomyces pseudogriseolus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-07-17 Released: 2025-07-30 
• Deposition Author(s): Schulz, E.C., Prester, A., Stetten, D.V., Gore, G., Hatton, C.E., Bartels, K., Leimkohl, J.P., Schikora, H., Ginn, H.M., Tellkamp, F., Mehrabi, P.
• Funding Organization(s): German Research Foundation (DFG), European Research Council (ERC), German Federal Ministry for Education and Research

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.191 (Depositor), 0.190 (DCC) 
• R-Value Work: 
  0.162 (Depositor), 0.163 (DCC) 
• R-Value Observed: 
  0.164 (Depositor) 

Starting Model: experimental

Literature

Xylose Isomerase collected at 20C using serial fixed-target crystallography

Schulz, E.C., Prester, A., Stetten, D.V., Gore, G., Hatton, C.E., Bartels, K., Leimkohl, J.P., Schikora, H., Ginn, H.M., Tellkamp, F., Mehrabi, P.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 43.33 kDa 
• Atom Count: 3,618 
• Modeled Residue Count: 386 
• Deposited Residue Count: 388 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Xylose isomerase	A	388	Streptomyces pseudogriseolus	Mutation(s): 0  Gene Names: xylA EC: 5.3.1.5
UniProt
Find proteins for P24300 (Streptomyces rubiginosus) Explore P24300  Go to UniProtKB:  P24300

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG (Subject of Investigation/LOI)	B [auth A], C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.191 (Depositor), 0.190 (DCC) 
• R-Value Work:  0.162 (Depositor), 0.163 (DCC) 
• R-Value Observed: 0.164 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 94.2	α = 90
b = 103.05	β = 90
c = 99.25	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
CrystFEL	data reduction
CrystFEL	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-07-30 
Deposition Author(s): Schulz, E.C., Prester, A., Stetten, D.V., Gore, G., Hatton, C.E., Bartels, K., Leimkohl, J.P., Schikora, H., Ginn, H.M., Tellkamp, F., Mehrabi, P.

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Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	451079909
German Research Foundation (DFG)	Germany	458246365
European Research Council (ERC)	European Union	101071843
German Research Foundation (DFG)	Germany	194651731
German Federal Ministry for Education and Research	Germany	05K16GU1
German Federal Ministry for Education and Research	Germany	05K19GU1
German Federal Ministry for Education and Research	Germany	05K22GU6

Revision History  

• Version 1.0: 2025-07-30
  Type: Initial release