7FD3 | pdb_00007fd3

IL-1RAPL2 TIR domain

PDB DOI: https://doi.org/10.2210/pdb7FD3/pdb

Classification: IMMUNE SYSTEM
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2021-07-15 Released: 2022-07-20
Deposition Author(s): Wang, X., Zhou, J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.99 Å
R-Value Free:
0.282 (Depositor), 0.279 (DCC)
R-Value Work:
0.240 (Depositor)
R-Value Observed:
0.242 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Structural basis of the IL-1 receptor TIR domain-mediated IL-1 signaling

Zhou, J., Xiao, Y., Ren, Y., Ge, J., Wang, X.

(2022) iScience 25: 104508

DOI: https://doi.org/10.1016/j.isci.2022.104508

Macromolecule Content

Total Structure Weight: 19.05 kDa
Atom Count: 1,289
Modeled Residue Count: 155
Deposited Residue Count: 161
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
X-linked interleukin-1 receptor accessory protein-like 2	A	161	Homo sapiens	Mutation(s): 0 Gene Names: IL1RAPL2 EC: 3.2.2.6
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NP60 (Homo sapiens) Explore Q9NP60 Go to UniProtKB: Q9NP60
PHAROS: Q9NP60 GTEx: ENSG00000189108
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9NP60
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.99 Å
R-Value Free: 0.282 (Depositor), 0.279 (DCC)
R-Value Work: 0.240 (Depositor)
R-Value Observed: 0.242 (Depositor)

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.141	α = 90
b = 51.141	β = 90
c = 184.779	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2022-07-20

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2022-07-20
Type: Initial release
Version 1.1: 2022-08-10
Changes: Database references
Version 1.2: 2023-11-29
Changes: Data collection, Refinement description

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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.