8SF4

Cystathionine gamma lyase from Thermobifida fusca in internal aldimine form

• PDB DOI: https://doi.org/10.2210/pdb8SF4/pdb

• Classification: LYASE
• Organism(s): Thermobifida fusca
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-04-10 Released: 2024-07-03 
• Deposition Author(s): Perkins, L.J., Buller, A.R., Bindman, C.A.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.46 Å
• R-Value Free: 0.148 
• R-Value Work: 0.133 

Starting Model: experimental

Literature

Multiplexed deconvolution of enzyme function in a PLP-dependent protein family

Zmich, A.P., Perkins, L.J., Bingman, C.A., Buller, A.R.

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 and generated by PISA (software)

Biological Assembly Evidence: homology

Macromolecule Content

• Total Structure Weight: 42.15 kDa 
• Atom Count: 3,345 
• Modelled Residue Count: 379 
• Deposited Residue Count: 389 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cystathionine gamma-lyase	A	389	Thermobifida fusca	Mutation(s): 0  Gene Names: Tfu_0440 EC: 4.4.1.1
UniProt
Find proteins for Q47ST9 (Thermobifida fusca (strain YX)) Explore Q47ST9  Go to UniProtKB:  Q47ST9

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1PE	C [auth A]	PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N
PEG	B [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
MG	D [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
LLP	A	L-PEPTIDE LINKING	C14 H22 N3 O7 P		LYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.46 Å
• R-Value Free: 0.148 
• R-Value Work: 0.133 
• Space Group: P 2 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 117.591	α = 90
b = 117.591	β = 90
c = 117.591	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-03 
Deposition Author(s): Perkins, L.J., Buller, A.R., Bindman, C.A.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	1DP2GM137417-01

Revision History  

• Version 1.0: 2024-07-03
  Type: Initial release