3RMR | pdb_00003rmr

Crystal structure of Hyaloperonospora arabidopsidis ATR1 effector domain

PDB DOI: https://doi.org/10.2210/pdb3RMR/pdb

Classification: PROTEIN BINDING
Organism(s): Hyaloperonospora parasitica
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2011-04-21 Released: 2011-07-20
Deposition Author(s): Chou, S., Krasileva, K.V., Holton, J.M., Staskawicz, B.J., Alber, T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.260 (Depositor), 0.260 (DCC)
R-Value Work:
0.223 (Depositor), 0.230 (DCC)
R-Value Observed:
0.225 (Depositor)

wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history.

Literature

The Hyaloperonospora arabidopsidis ATR1 effector has distributed recognition surfaces and a structural subdomain conserved across oomycete species

Chou, S., Krasileva, K.V., Holton, J.M., Steinbrenner, A., Alber, T., Staskawicz, B.J.

To be published.

Macromolecule Content

Total Structure Weight: 89.03 kDa
Atom Count: 5,846
Modeled Residue Count: 702
Deposited Residue Count: 780
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Avirulence protein	A, B, C	260	Hyaloperonospora parasitica	Mutation(s): 0 Gene Names: Atr1, ATR1NdWsB
UniProt
Find proteins for M4B6G6 (Hyaloperonospora arabidopsidis (strain Emoy2)) Explore M4B6G6 Go to UniProtKB: M4B6G6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	M4B6G6
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.260 (Depositor), 0.260 (DCC)
R-Value Work: 0.223 (Depositor), 0.230 (DCC)
R-Value Observed: 0.225 (Depositor)

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 119.432	α = 90
b = 119.432	β = 90
c = 312.572	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data collection
PHENIX	model building
ELVES	refinement
ELVES	data reduction
HKL-2000	data reduction
ELVES	data scaling
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2011-07-20

Deposition Author(s):

Krasileva, K.V.

Staskawicz, B.J.

Revision History (Full details and data files)

Version 1.0: 2011-07-20
Type: Initial release
Version 1.1: 2017-11-08
Changes: Refinement description
Version 1.2: 2019-07-17
Changes: Data collection, Derived calculations, Refinement description
Version 1.3: 2024-11-20
Changes: Data collection, Database references, Derived calculations, 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.