2I5I | pdb_00002i5i

CRYSTAL STRUCTURE OF A PUTATIVE CELLOBIOSE-PHOSPHATE CLEAVAGE PROTEIN (EF3048) FROM ENTEROCOCCUS FAECALIS V583 AT 1.70 A RESOLUTION

• PDB DOI: https://doi.org/10.2210/pdb2I5I/pdb

• Classification: HYDROLASE
• Organism(s): Enterococcus faecalis V583
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2006-08-24 Released: 2006-09-05 
• Deposition Author(s): Joint Center for Structural Genomics (JCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.185 (Depositor), 0.170 (DCC) 
• R-Value Work: 
  0.144 (Depositor), 0.140 (DCC) 
• R-Value Observed: 
  0.146 (Depositor) 

Literature

Crystal structure of hypothetical protein (EF3048) from ENTEROCOCCUS FAECALIS V583 at 1.70 A resolution

Joint Center for Structural Genomics (JCSG)

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 60.4 kDa 
• Atom Count: 4,455 
• Modeled Residue Count: 522 
• Deposited Residue Count: 526 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UPF0249 protein EF_3048	A, B	263	Enterococcus faecalis V583	Mutation(s): 8  Gene Names: EF3048 EC: 3.5.1
UniProt
Find proteins for P59745 (Enterococcus faecalis (strain ATCC 700802 / V583)) Explore P59745  Go to UniProtKB:  P59745

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.185 (Depositor), 0.170 (DCC) 
• R-Value Work:  0.144 (Depositor), 0.140 (DCC) 
• R-Value Observed: 0.146 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M32I5I

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 130.53	α = 90
b = 130.53	β = 90
c = 85.76	γ = 120

Software Package:

Software Name	Purpose
MolProbity	model building
SHELX	refinement
SCALEPACK	data scaling
PDB_EXTRACT	data extraction
HKL-2000	data reduction
SOLVE	phasing
SHELXL-97	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-09-05 
Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Revision History  

• Version 1.0: 2006-09-05
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Source and taxonomy, Version format compliance
• Version 1.3: 2017-10-18
  Changes: Refinement description
• Version 1.4: 2017-10-25
  Changes: Author supporting evidence
• Version 1.5: 2023-01-25
  Changes: Database references, Derived calculations
• Version 1.6: 2024-10-30
  Changes: Data collection, Structure summary