6W6S | pdb_00006w6s

WT HTLV-1 Protease in Complex with Phosphonated UMass6 (PU6)

• PDB DOI: https://doi.org/10.2210/pdb6W6S/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Human T-cell leukemia virus type I
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2020-03-17 Released: 2021-03-17 
• Deposition Author(s): Lockbaum, G.J., Henes, M., Kosovrasti, K., Nalivaika, E.A., Ali, A., KurtYilmaz, N., Schiffer, 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: 2.29 Å
• R-Value Free: 
  0.306 (Depositor), 0.310 (DCC) 
• R-Value Work: 
  0.266 (Depositor), 0.270 (DCC) 
• R-Value Observed: 
  0.268 (Depositor) 

Starting Model: experimental

Literature

To Be Determined

Lockbaum, G.J., Henes, M., Kosovrasti, K., Nalivaika, E.A., Ali, A., KurtYilmaz, N., Schiffer, C.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 PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 25.87 kDa 
• Atom Count: 1,761 
• Modeled Residue Count: 232 
• Deposited Residue Count: 232 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HTLV-1 Protease	A [auth B], B [auth A]	116	Human T-cell leukemia virus type I	Mutation(s): 0  Gene Names: pro
UniProt
Find proteins for P10274 (Human T-cell leukemia virus 1 (strain Japan ATK-1 subtype A)) Explore P10274  Go to UniProtKB:  P10274

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TK7 (Subject of Investigation/LOI)	C [auth A]	diethyl [(4-{(2S,3R)-4-{[(4-aminophenyl)sulfonyl](2-ethylbutyl)amino}-2-[({[(3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-yl]oxy}carbonyl)amino]-3-hydroxybutyl}phenoxy)methyl]phosphonate C34 H52 N3 O11 P S BEYLPLHLWVCWJA-NKVOBILMSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.29 Å
• R-Value Free:  0.306 (Depositor), 0.310 (DCC) 
• R-Value Work:  0.266 (Depositor), 0.270 (DCC) 
• R-Value Observed: 0.268 (Depositor) 

Space Group: P 6₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.566	α = 90
b = 76.566	β = 90
c = 157.285	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
PHASER	phasing
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-03-17 
Deposition Author(s): Lockbaum, G.J., Henes, M., Kosovrasti, K., Nalivaika, E.A., Ali, A., KurtYilmaz, N., Schiffer, 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	P01-GM109767

Revision History  

• Version 1.0: 2021-03-17
  Type: Initial release
  
• Version 2.0: 2023-10-18
  Changes: Data collection, Database references, Non-polymer description, Refinement description