9BED

Tungstate binding protein (Tungbindin) from Eubacterium limosum with eight molybdates bound

• PDB DOI: https://doi.org/10.2210/pdb9BED/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Eubacterium limosum
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-04-15 Released: 2024-09-04 
• Deposition Author(s): Zhou, D., Rose, J.P., Chen, L., Wang, B.C.
• 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: 2.02 Å
• R-Value Free: 0.205 
• R-Value Work: 0.151 
• R-Value Observed: 0.154 

Literature

Tungstate binding protein (Tungbindin) from Eubacterium limosum with eight molybdates bound

Zhou, D., Rose, J.P., Chen, L., Wang, B.C.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 47.42 kDa 
• Atom Count: 3,551 
• Modelled Residue Count: 422 
• Deposited Residue Count: 444 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Molybdenum-pterin-binding protein	A, B, C, D, E, F	74	Eubacterium limosum	Mutation(s): 0  Gene Names: B2M23_18525, C7955_103236, SAMN04515624_10415
UniProt
Find proteins for A0A0U3FVB3 (Eubacterium limosum) Explore A0A0U3FVB3  Go to UniProtKB:  A0A0U3FVB3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MOO (Subject of Investigation/LOI)	G [auth A], H [auth A], I [auth B], J [auth B], K [auth C], L [auth D], M [auth E], N [auth F]	MOLYBDATE ION Mo O4 MEFBJEMVZONFCJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.02 Å
• R-Value Free: 0.205 
• R-Value Work: 0.151 
• R-Value Observed: 0.154 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.713	α = 90
b = 74.713	β = 90
c = 156.01	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-09-04 
Deposition Author(s): Zhou, D., Rose, J.P., Chen, L., Wang, B.C.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM 136885

Revision History  

• Version 1.0: 2024-09-04
  Type: Initial release