3KSK | pdb_00003ksk

Crystal Structure of single chain PvuII

• PDB DOI: https://doi.org/10.2210/pdb3KSK/pdb

• Classification: HYDROLASE
• Organism(s): Proteus hauseri
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-11-23 Released: 2010-04-14 
• Deposition Author(s): Meramveliotaki, C., Hountas, A., Eliopoulos, E., Kokkinidis, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 
  0.283 (Depositor) 
• R-Value Work: 
  0.215 (Depositor), 0.215 (DCC) 
• R-Value Observed: 
  0.219 (Depositor) 

Literature

Crystal Structure of single chain PvuII

Meramveliotaki, C., Hountas, A., Eliopoulos, E., Kokkinidis, M.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 76.23 kDa 
• Atom Count: 5,633 
• Modeled Residue Count: 624 
• Deposited Residue Count: 648 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Type-2 restriction enzyme PvuII	A, B	324	Proteus hauseri	Mutation(s): 0  Gene Names: pvuII, pvuIIR EC: 3.1.21.4
UniProt
Find proteins for P23657 (Proteus hauseri) Explore P23657  Go to UniProtKB:  P23657

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TRS	I [auth B], J [auth B]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O
MPD	E [auth A]	(4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N
SO4	C [auth A], D [auth A], F [auth B], G [auth B], H [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free:  0.283 (Depositor) 
• R-Value Work:  0.215 (Depositor), 0.215 (DCC) 
• R-Value Observed: 0.219 (Depositor) 

Space Group: P 4₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.921	α = 90
b = 101.921	β = 90
c = 100.284	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
DM	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-04-14 
Deposition Author(s): Meramveliotaki, C., Hountas, A., Eliopoulos, E., Kokkinidis, M.

Revision History  

• Version 1.0: 2010-04-14
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-07-05
  Changes: Source and taxonomy
• Version 1.3: 2017-11-01
  Changes: Refinement description
• Version 1.4: 2024-02-21
  Changes: Data collection, Database references, Derived calculations, Refinement description