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)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.185 (Depositor), 0.167 (DCC)
R-Value Work:
0.144 (Depositor), 0.133 (DCC)
R-Value Observed:
0.146 (Depositor)

wwPDB Validation 3D Report Full Report

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This is version 1.6 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
Modeled Residue Count: 522
Deposited Residue Count: 526
Unique protein chains: 1

Macromolecules

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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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% 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 (Depositor), 0.167 (DCC)
R-Value Work: 0.144 (Depositor), 0.133 (DCC)
R-Value Observed: 0.146 (Depositor)

Diffraction Data:

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

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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
Version 1.6: 2024-10-30
Changes: Data collection, Structure summary

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.