1DJ8 | pdb_00001dj8

CRYSTAL STRUCTURE OF E. COLI PERIPLASMIC PROTEIN HDEA

PDB DOI: https://doi.org/10.2210/pdb1DJ8/pdb

Classification: STRUCTURAL PROTEIN
Organism(s): Escherichia coli
Mutation(s): No

Deposited: 1999-12-02 Released: 1999-12-10
Deposition Author(s): Gajiwala, K.S., Burley, S.K.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.261 (Depositor), 0.264 (DCC)
R-Value Work:
0.209 (Depositor), 0.212 (DCC)
R-Value Observed:
0.209 (Depositor)

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This is version 1.4 of the entry. See complete history.

Literature

HDEA, a periplasmic protein that supports acid resistance in pathogenic enteric bacteria.

Gajiwala, K.S., Burley, S.K.

(2000) J Mol Biology 295: 605-612

PubMed: 10623550 Search on PubMed
DOI: https://doi.org/10.1006/jmbi.1999.3347
Primary Citation Related Structures:
1DJ8

PubMed Abstract:
The X-ray crystal structure of the Escherichia coli stress response protein HDEA has been determined at 2.0 A resolution. The single domain alpha-helical protein is found in the periplasmic space, where it supports an acid resistance phenotype essential for infectivity of enteric bacterial pathogens, such as Shigella and E. coli. Functional studies demonstrate that HDEA is activated by a dimer-to-monomer transition at acidic pH, leading to suppression of aggregation by acid-denatured proteins. We suggest that HDEA may support chaperone-like functions during the extremely acidic conditions.

Organizational Affiliation

Laboratorie of Molecular Biophysics, Howard Hughes Medical Institute, New York, 10021, USA.

Macromolecule Content

Total Structure Weight: 58.52 kDa
Atom Count: 4,067
Modeled Residue Count: 474
Deposited Residue Count: 534
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN HNS-DEPENDENT EXPRESSION A	A, B, C, D, E A, B, C, D, E, F	89	Escherichia coli	Mutation(s): 0
UniProt
Find proteins for P0AES9 (Escherichia coli (strain K12)) Explore P0AES9 Go to UniProtKB: P0AES9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0AES9
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.261 (Depositor), 0.264 (DCC)
R-Value Work: 0.209 (Depositor), 0.212 (DCC)
R-Value Observed: 0.209 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47	α = 90
b = 73.6	β = 96.8
c = 74.3	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
CNS	refinement

Structure Validation

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Entry History

Deposition Data

Released Date: 1999-12-10

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 1999-12-10
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2021-02-03
Changes: Database references, Structure summary
Version 1.4: 2024-10-30
Changes: Data collection, Database references, 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.