8PUJ | pdb_00008puj

The surface-exposed lipo-protein of BtuG2 in complex with cyanocobalamin.

• PDB DOI: https://doi.org/10.2210/pdb8PUJ/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Bacteroides thetaiotaomicron
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-07-17 Released: 2024-07-24 
• Deposition Author(s): Whittaker, J., Martinez-Felices, J.M., Guskov, A., Slotboom, D.J.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.202 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.172 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.173 (Depositor) 

Starting Model: experimental

Literature

The surface-exposed lipo-protein of BtuG3 in complex with cyanocobinamide.

Whittaker, J., Guskov, A.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: isothermal titration calorimetry

Macromolecule Content 

• Total Structure Weight: 75.57 kDa 
• Atom Count: 5,856 
• Modeled Residue Count: 644 
• Deposited Residue Count: 644 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
YncE family protein	A, B [auth C]	322	Bacteroides thetaiotaomicron	Mutation(s): 0  Gene Names: BSIG_3269
UniProt
Find proteins for A0A0P0F756 (Bacteroides thetaiotaomicron) Explore A0A0P0F756  Go to UniProtKB:  A0A0P0F756

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CBY	D [auth A]	COB(II)INAMIDE C48 H72 Co N11 O8 GFVWZOGCSKVPRA-JFYQDRLCSA-M
NA	E [auth A], F [auth A], G [auth C], H [auth C]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N
OH	C [auth A]	HYDROXIDE ION H O XLYOFNOQVPJJNP-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.202 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.172 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.173 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 107.993	α = 90
b = 151.985	β = 90
c = 45.618	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-24 
Deposition Author(s): Whittaker, J., Martinez-Felices, J.M., Guskov, A., Slotboom, D.J.

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Funding Organization	Location	Grant Number
Not funded	Netherlands	--

Revision History  

• Version 1.0: 2024-07-24
  Type: Initial release