Macromolecule Content

Total Structure Weight: 15.66 kDa
Atom Count: 1,092
Modelled Residue Count: 126
Deposited Residue Count: 132
Unique protein chains: 1

7RA9

Designed StabIL-2 seq1

PDB DOI: 10.2210/pdb7RA9/pdb

Classification: CYTOKINE
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2021-06-30 Released: 2022-03-16
Deposition Author(s): Jude, K.M., Chu, A.E., Huang, P.-S., Garcia, K.C.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free: 0.293
R-Value Work: 0.253
R-Value Observed: 0.257

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Simple mutations discovered by computational design yield stabilized IL-2 variants with superkine properties

Ren, J., Chu, A.E., Jude, K.M., Picton, L.K., Kare, A.J., Su, L., Liu, J., Montano Romero, A., Huang, P.-S., Garcia, K.C.

To be published.

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Interleukin-2	A	132	Homo sapiens	Mutation(s): 18 Gene Names: IL2
UniProt & NIH Common Fund Data Resources
Find proteins for P60568 (Homo sapiens) Explore P60568 Go to UniProtKB: P60568
PHAROS: P60568
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P60568
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EPE Query on EPE Download Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A]	E [auth A]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C₈ H₁₈ N₂ O₄ S JKMHFZQWWAIEOD-UHFFFAOYSA-N		Ligand Interaction
PO4 Query on PO4 Download Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] SDF format, chain D [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A]	B [auth A], C [auth A], D [auth A]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free: 0.293
R-Value Work: 0.253
R-Value Observed: 0.257
Space Group: P 6₅ 2 2
Diffraction Data DOI: 10.15785/SBGRID/882

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.588	α = 90
b = 46.588	β = 90
c = 234.255	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2022-03-16

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	R37 AI051321

Revision History (Full details and data files)

Version 1.0: 2022-03-16
Type: Initial release
Version 1.1: 2022-03-23
Changes: Database references

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.