9FW5 | pdb_00009fw5

Retroaldolase 17 (RAD17)

PDB DOI: https://doi.org/10.2210/pdb9FW5/pdb

Classification: DE NOVO PROTEIN
Organism(s): synthetic construct
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-06-28 Released: 2025-07-09
Deposition Author(s): Bijelic, A., Braun, M., Stoll, D., Tripp, A., Chakatok, M., Oberdorfer, G.
Funding Organization(s): Austrian Science Fund

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free:
0.275 (Depositor), 0.268 (DCC)
R-Value Work:
0.238 (Depositor), 0.232 (DCC)
R-Value Observed:
0.240 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

De novo enzyme design by artificial motif library scaffolding

Braun, M., Tripp, A., Stoll, D., Kaltenbrunner, S., Chakatok, M., Totaro, M.G., Hoch Cohen, S.Y., Elaily, W., Bijelic, A., Hall, M., Oberdorfer, G.

To be published.

Macromolecule Content

Total Structure Weight: 23.12 kDa
Atom Count: 1,499
Modeled Residue Count: 197
Deposited Residue Count: 200
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Retroaldolase 17 (RAD17)	A	200	synthetic construct	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
2PE Query on 2PE Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	NONAETHYLENE GLYCOL C₁₈ H₃₈ O₁₀ YZUUTMGDONTGTN-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free: 0.275 (Depositor), 0.268 (DCC)
R-Value Work: 0.238 (Depositor), 0.232 (DCC)
R-Value Observed: 0.240 (Depositor)

Space Group: I 4₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 107.108	α = 90
b = 107.108	β = 90
c = 52.415	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-07-09

Deposition Author(s):

Funding Organization	Location	Grant Number
Austrian Science Fund	Austria	--

Revision History (Full details and data files)

Version 1.0: 2025-07-09
Type: Initial release

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.