2I5I

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)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.185
R-Value Work: 0.144
R-Value Observed: 0.146

wwPDB Validation 3D Report Full Report

This is version 1.5 of the entry. See complete history.

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.

Macromolecule Content

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

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

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
UniProt
Find proteins for P59745 (Enterococcus faecalis (strain ATCC 700802 / V583)) Explore P59745 Go to UniProtKB: P59745
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P59745
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on 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
R-Value Work: 0.144
R-Value Observed: 0.146
Space Group: H 3
Diffraction Data: https://doi.org/10.18430/M32I5I

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

View Full Validation Report

Entry History

Deposition Data

Released Date: 2006-09-05

Deposition Author(s):

Joint Center for Structural Genomics (JCSG)

Revision History (Full details and data files)

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

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.