5UR3 | pdb_00005ur3

Kaposi's Sarcoma Herpesvirus Protease in Complex with Allosteric Inhibitor

• PDB DOI: https://doi.org/10.2210/pdb5UR3/pdb

• Classification: HYDROLASE/HYDROLASE inhibitor
• Organism(s): Human gammaherpesvirus 8
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2017-02-09 Released: 2017-03-08 
• Deposition Author(s): Acker, T.M., Gable, J., Bohn, M.-F., Craik, C.S.
• 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: 1.80 Å
• R-Value Free: 
  0.223 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.180 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.182 (Depositor) 

Literature

Kaposi's Sarcoma Herpesvirus Protease in Complex with Allosteric Inhibitor

Acker, T.M., Craik, C.S., Bohn, M.-F.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 43.67 kDa 
• Atom Count: 3,320 
• Modelled Residue Count: 382 
• Deposited Residue Count: 386 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
KSHV protease	A, B	193	Human gammaherpesvirus 8	Mutation(s): 0  Gene Names: ORF17
UniProt
Find proteins for O40922 (Human herpesvirus 8) Explore O40922  Go to UniProtKB:  O40922

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
8OY	C [auth A], D [auth B], E [auth B]	4-{[6-(cyclohexylmethyl)pyridine-2-carbonyl]amino}-3-(phenylamino)benzoic acid C26 H27 N3 O3 PIPBPJWDZSBLMQ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.223 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.180 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.182 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.4	α = 90
b = 92.86	β = 90
c = 118.93	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
xia2	data reduction
SCALA	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-03-08 
Deposition Author(s): Acker, T.M., Gable, J., Bohn, M.-F., Craik, C.S.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	NIH R01 GM104659
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	1F32GM111012

Revision History  

• Version 1.0: 2017-03-08
  Type: Initial release
  
• Version 1.1: 2017-09-27
  Changes: Author supporting evidence
• Version 1.2: 2020-01-01
  Changes: Author supporting evidence
• Version 1.3: 2024-03-06
  Changes: Data collection, Database references