3LKB

Crystal structure of a branched chain amino acid ABC transporter from Thermus thermophilus with bound valine

• PDB DOI: https://doi.org/10.2210/pdb3LKB/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Thermus thermophilus HB8
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2010-01-27 Released: 2010-02-09 
• Deposition Author(s): Agarwal, R., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.236 
• R-Value Work: 0.174 
• R-Value Observed: 0.177 

Literature

Crystal structure of a branched chain amino acid ABC transporter from Thermus thermophilus with bound valine

Agarwal, R., Sauder, J.M., Burley, S.K., Swaminathan, S.

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.

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

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

Biological assembly 3 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 86.98 kDa 
• Atom Count: 6,089 
• Modelled Residue Count: 764 
• Deposited Residue Count: 784 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable branched-chain amino acid ABC transporter, amino acid binding protein	A, B	392	Thermus thermophilus HB8	Mutation(s): 2  Gene Names: TTHA0451
UniProt
Find proteins for Q5SL42 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SL42  Go to UniProtKB:  Q5SL42

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
VAL	C [auth A], F [auth B]	VALINE C5 H11 N O2 KZSNJWFQEVHDMF-BYPYZUCNSA-N
IPA	D [auth A], G [auth B]	ISOPROPYL ALCOHOL C3 H8 O KFZMGEQAYNKOFK-UHFFFAOYSA-N
NA	E [auth A], H [auth B]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.236 
• R-Value Work: 0.174 
• R-Value Observed: 0.177 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.708	α = 90
b = 83.176	β = 90
c = 122.002	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
SHELXD	phasing
SHARP	phasing
Coot	model building
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-02-09 
Deposition Author(s): Agarwal, R., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2010-02-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2021-02-10
  Changes: Database references, Derived calculations, Structure summary
• Version 1.3: 2021-10-13
  Changes: Database references
• Version 1.4: 2024-02-21
  Changes: Data collection