3BED | pdb_00003bed

Mannose/sorbose specific IIA subunit of phosphotransferase system from Enterococcus faecalis

PDB DOI: https://doi.org/10.2210/pdb3BED/pdb
Entry: 3BED supersedes: 2IAC

Classification: TRANSFERASE
Organism(s): Enterococcus faecalis V583
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2007-11-16 Released: 2007-11-27
Deposition Author(s): Osipiuk, J., Wu, R., Moy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.45 Å
R-Value Free:
0.197 (Depositor), 0.194 (DCC)
R-Value Work:
0.157 (Depositor), 0.156 (DCC)
R-Value Observed:
0.159 (Depositor)

wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history.

Literature

X-Ray Crystal Structure of Mannose/sorbose specific IIa subunit of phosphotransferase system from Enterococcus faecalis.

Osipiuk, J., Wu, R., Moy, S., Joachimiak, A.

To be published.

Macromolecule Content

Total Structure Weight: 30.61 kDa
Atom Count: 2,355
Modeled Residue Count: 261
Deposited Residue Count: 284
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PTS system, IIA component	A, B	142	Enterococcus faecalis V583	Mutation(s): 0 Gene Names: EF_0461
UniProt
Find proteins for Q838I6 (Enterococcus faecalis (strain ATCC 700802 / V583)) Explore Q838I6 Go to UniProtKB: Q838I6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q838I6
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 2 Unique
ID	Chains	Modified Residue	Modification Type	Formula	2D Diagram
MSE Query on MSE	A, B	MET	Selenomethionine	C₅ H₁₁ N O₂ Se
MLY Query on MLY	A, B	LYS	Methylation	C₈ H₁₈ N₂ O₂

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.45 Å
R-Value Free: 0.197 (Depositor), 0.194 (DCC)
R-Value Work: 0.157 (Depositor), 0.156 (DCC)
R-Value Observed: 0.159 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.059	α = 90
b = 37.503	β = 121.49
c = 76.993	γ = 90

Software Package:

Software Name	Purpose
HKL-3000	phasing
SHELXD	phasing
MLPHARE	phasing
DM	model building
SOLVE	phasing
RESOLVE	model building
REFMAC	refinement
SBC-Collect	data collection
HKL-2000	data reduction
HKL-2000	data scaling
DM	phasing
RESOLVE	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2007-11-27

Deposition Author(s):

Midwest Center for Structural Genomics (MCSG)

This entry supersedes: 2IAC

Revision History (Full details and data files)

Version 1.0: 2007-11-27
Type: Initial release
Version 1.1: 2011-07-13
Changes: Source and taxonomy, Version format compliance
Version 1.2: 2025-03-26
Changes: Data collection, Database references, Derived calculations, Structure summary