2DP5 | pdb_00002dp5

Structure of streptococcus pyogenes bacteriophage-associated hyaluronate lyase Hylp2

• PDB DOI: https://doi.org/10.2210/pdb2DP5/pdb

• Classification: LYASE
• Organism(s): Streptococcus pyogenes
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2006-05-06 Released: 2006-05-30 
• Deposition Author(s): Mishra, P., Bhakuni, V., Prem Kumar, R., Singh, N., Sharma, S., Kaur, P., Singh, T.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.55 Å
• R-Value Free: 
  0.236 (Depositor) 
• R-Value Work: 
  0.221 (Depositor) 
• R-Value Observed: 
  0.223 (Depositor) 

Starting Model: experimental

Literature

Structure of streptococcus pyogenes bacteriophage-associated hyaluronate lyase Hylp2

Mishra, P., Bhakuni, V., Prem Kumar, R., Singh, N., Sharma, S., Kaur, P., Singh, T.P.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA,PQS (software)

Macromolecule Content 

• Total Structure Weight: 35.83 kDa 
• Atom Count: 2,534 
• Modeled Residue Count: 332 
• Deposited Residue Count: 332 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hyaluronidase	A	332	Streptococcus pyogenes	Mutation(s): 0  EC: 4.2.2.1
UniProt
Find proteins for Q9A0M7 (Streptococcus pyogenes serotype M1) Explore Q9A0M7  Go to UniProtKB:  Q9A0M7

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.55 Å
• R-Value Free:  0.236 (Depositor) 
• R-Value Work:  0.221 (Depositor) 
• R-Value Observed: 0.223 (Depositor) 

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.587	α = 90
b = 59.587	β = 90
c = 588.546	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-05-30 
Deposition Author(s): Mishra, P., Bhakuni, V., Prem Kumar, R., Singh, N., Sharma, S., Kaur, P., Singh, T.P.

Revision History  

• Version 1.0: 2006-05-30
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2023-10-25
  Changes: Data collection, Database references, Refinement description