4UFQ

Structure of a novel Hyaluronidase (Hyal_Sk) from Streptomyces koganeiensis.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.174 
  • R-Value Work: 0.149 

wwPDB Validation 3D Report Full Report


This is version 1.5 of the entry. See complete history

Literature

Identification and Characterization of a Bacterial Hyaluronidase and its Production in Recombinant Form.

Messina, L.Gavira, J.A.Pernagallo, S.Unciti-Broceta, J.D.Sanchez Martin, R.M.Diaz-Mochon, J.J.Vaccaro, S.Conejero-Muriel, M.Pineda-Molina, E.Caruso, S.Musumeci, L.Di Pasquale, R.Pontillo, A.Sincinelli, F.Pavan, M.Secchieri, C.

(2016) FEBS Lett. 590: 2180

  • DOI: 10.1002/1873-3468.12258

  • PubMed Abstract: 
  • Hyaluronidases (Hyals) are broadly used in medical applications to facilitate the dispersion and/or absorption of fluids or medications. This study reports the isolation, cloning, and industrial-scale recombinant production, purification and full cha ...

    Hyaluronidases (Hyals) are broadly used in medical applications to facilitate the dispersion and/or absorption of fluids or medications. This study reports the isolation, cloning, and industrial-scale recombinant production, purification and full characterization, including X-ray structure determination at 1.45 Å, of an extracellular Hyal from the nonpathogenic bacterium Streptomyces koganeiensis. The recombinant S. koganeiensis Hyal (rHyal_Sk) has a novel bacterial catalytic domain with high enzymatic activity, compared with commercially available Hyals, and is more thermostable and presents higher proteolytic resistance, with activity over a broad pH range. Moreover, rHyal_Sk exhibits remarkable substrate specificity for hyaluronic acid (HA) and poses no risk of animal cross-infection.


    Organizational Affiliation

    Local Unit Fidia Research Sud, Fidia Farmaceutici S.p.A., Noto, Italy.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Hyaluronidase
A, B
217Streptomyces koganeiensisMutation(s): 0 
Find proteins for A0A0U2E2J7 (Streptomyces koganeiensis)
Go to UniProtKB:  A0A0U2E2J7
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

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Download CCD File 
A, B
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

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Download CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
CL
Query on CL

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Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
GOL
Query on GOL

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Download CCD File 
B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
PEG
Query on PEG

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Download CCD File 
A
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.174 
  • R-Value Work: 0.149 
  • Space Group: H 3 2
Unit Cell:
Length (Å)Angle (°)
a = 66.884α = 90.00
b = 66.884β = 90.00
c = 483.942γ = 120.00
Software Package:
Software NamePurpose
SCALAdata scaling
SHELXDEphasing
PHENIXrefinement
XDSdata reduction
MLPHAREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-04-13
    Type: Initial release
  • Version 1.1: 2016-06-29
    Type: Database references
  • Version 1.2: 2016-07-13
    Type: Database references, Structure summary
  • Version 1.3: 2016-08-10
    Type: Database references
  • Version 1.4: 2017-03-29
    Type: Database references, Source and taxonomy
  • Version 1.5: 2017-08-23
    Type: Data collection