8T9T

Apo Crystal Structure of a Substrate Binding Protein (IseP) from an Isethionate TRAP Transporter

• PDB DOI: https://doi.org/10.2210/pdb8T9T/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Oleidesulfovibrio alaskensis G20
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-06-25 Released: 2024-06-26 
• Deposition Author(s): Newton-Vesty, M.C., Dobson, R.C.J.
• Funding Organization(s): Marsden Fund

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.48 Å
• R-Value Free: 0.203 
• R-Value Work: 0.170 

Starting Model: in silico

Literature

Isethionate TRAP transporter substrate binding protein structure and function

Newton-Vesty, M.C., Dobson, R.C.J.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: SAXS

Macromolecule Content

• Total Structure Weight: 37.61 kDa 
• Atom Count: 2,955 
• Modelled Residue Count: 308 
• Deposited Residue Count: 336 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isethionate-binding periplasmic protein DctP	A	336	Oleidesulfovibrio alaskensis G20	Mutation(s): 0  Gene Names: dctP, Dde_1275
UniProt
Find proteins for Q312S0 (Oleidesulfovibrio alaskensis (strain ATCC BAA-1058 / DSM 17464 / G20)) Explore Q312S0  Go to UniProtKB:  Q312S0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	B [auth A], C [auth A], D [auth A], G [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
CL	E [auth A], F [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.48 Å
• R-Value Free: 0.203 
• R-Value Work: 0.170 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.925	α = 90
b = 72.997	β = 90
c = 95.24	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-06-26 
Deposition Author(s): Newton-Vesty, M.C., Dobson, R.C.J.

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Funding Organization	Location	Grant Number
Marsden Fund	New Zealand	--

Revision History  

• Version 1.0: 2024-06-26
  Type: Initial release