1KYI

HslUV (H. influenzae)-NLVS Vinyl Sulfone Inhibitor Complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.266 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Crystal Structure of HslUV Complexed with a Vinyl Sulfone Inhibitor: Corroboration of a Proposed Mechanism of Allosteric Activation of HslV by HslU

Sousa, M.C.Kessler, B.M.Overkleeft, H.S.McKay, D.B.

(2002) J Mol Biol 318: 779-785

  • DOI: 10.1016/S0022-2836(02)00145-6
  • Primary Citation of Related Structures:  
    1KYI

  • PubMed Abstract: 
  • On the basis of the structure of a HslUV complex, a mechanism of allosteric activation of the HslV protease, wherein binding of the HslU chaperone propagates a conformational change to the active site cleft of the protease, has been proposed. Here, the 3 ...

    On the basis of the structure of a HslUV complex, a mechanism of allosteric activation of the HslV protease, wherein binding of the HslU chaperone propagates a conformational change to the active site cleft of the protease, has been proposed. Here, the 3.1 A X-ray crystallographic structure of Haemophilus influenzae HslUV complexed with a vinyl sulfone inhibitor is described. The inhibitor, which reacts to form a covalent linkage to Thr1 of HslV, binds in an "antiparallel beta" manner, with hydrogen-bond interactions between the peptide backbone of the protease and that of the inhibitor, and with two leucinyl side chains of the inhibitor binding in the S1 and S3 specificity pockets of the protease. Comparison of the structure of the HslUV-inhibitor complex with that of HslV without inhibitor and in the absence of HslU reveals that backbone interactions would correctly position a substrate for cleavage in the HslUV complex, but not in the HslV protease alone, corroborating the proposed mechanism of allosteric activation. This activation mechanism differs from that of the eukaryotic proteasome, for which binding of activators opens a gated channel that controls access of substrates to the protease, but does not perturb the active site environment.


    Related Citations: 
    • Crystal and Solution Structures of an HslUV Protease-Chaperone Complex
      Sousa, M.C., Trame, C.B., Tsuruta, H., Wilbanks, S.M., Reddy, V.S., McKay, D.B.
      (2000) Cell 103: 633
    • Structure of Haemophilus influenzae HslV protein at 1.9 A resolution, revealing a cation-binding site near the catalytic site
      Sousa, M.C., McKay, D.B.
      (2001) Acta Crystallogr D Biol Crystallogr 57: 1950
    • Structure of Haemophilus influenzae HslU protein in crystals with one-dimensional disorder twinning
      Trame, C.B., McKay, D.B.
      (2001) Acta Crystallogr D Biol Crystallogr 57: 1079

    Organizational Affiliation

    Department of Structural Biology, Stanford University School of Medicine, Sherman Fairchild Building, Stanford, CA 94305-5400, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ATP-dependent hsl protease ATP-binding subunit hslU
A, B, C, D, E, F, S, T
A, B, C, D, E, F, S, T, U, V, W, X
444Haemophilus influenzae Rd KW20Mutation(s): 0 
Gene Names: hslUHI_0497
UniProt
Find proteins for P43773 (Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd))
Explore P43773 
Go to UniProtKB:  P43773
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
ATP-dependent protease hslV
G, H, I, J, K, L, M, N
G, H, I, J, K, L, M, N, O, P, Q, R
174Haemophilus influenzae Rd KW20Mutation(s): 0 
Gene Names: hslVHI_0496
EC: 3.4.99 (PDB Primary Data), 3.4.25.2 (UniProt)
UniProt
Find proteins for P43772 (Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd))
Explore P43772 
Go to UniProtKB:  P43772
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
LVS (Subject of Investigation/LOI)
Query on LVS

Download Ideal Coordinates CCD File 
EA [auth G] , FA [auth H] , GA [auth I] , HA [auth J] , IA [auth K] , JA [auth L] , KA [auth M] , LA [auth N] , 
EA [auth G], FA [auth H], GA [auth I], HA [auth J], IA [auth K], JA [auth L], KA [auth M], LA [auth N], MA [auth O], NA [auth P], OA [auth Q], PA [auth R]
4-IODO-3-NITROPHENYL ACETYL-LEUCINYL-LEUCINYL-LEUCINYL-VINYLSULFONE
C28 H43 I N4 O8 S
RSYTXXARKSZDKY-PUHATCMVSA-N
 Ligand Interaction
ATP (Subject of Investigation/LOI)
Query on ATP

Download Ideal Coordinates CCD File 
AA [auth C] , BA [auth D] , CA [auth E] , DA [auth F] , QA [auth S] , RA [auth T] , SA [auth U] , TA [auth V] , 
AA [auth C], BA [auth D], CA [auth E], DA [auth F], QA [auth S], RA [auth T], SA [auth U], TA [auth V], UA [auth W], VA [auth X], Y [auth A], Z [auth B]
ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.266 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 208.51α = 90
b = 219.97β = 90
c = 242.63γ = 90
Software Package:
Software NamePurpose
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
CNSphasing

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2002-05-15
    Type: Initial release
  • Version 1.1: 2008-04-28
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Source and taxonomy, Version format compliance