7TJL

Crystal structure of de novo designed protein, SEWN0.1

PDB DOI: https://doi.org/10.2210/pdb7TJL/pdb

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

Deposited: 2022-01-16 Released: 2022-06-29
Deposition Author(s): Cummins, M.C., Jacobs, T.M., Kuhlman, B.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.87 Å
R-Value Free: 0.231
R-Value Work: 0.210
R-Value Observed: 0.213

wwPDB Validation 3D Report Full Report

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

Literature

AlphaFold accurately predicts distinct conformations based on the oligomeric state of a de novo designed protein

Cummins, M.C., Jacobs, T.M., Teets, F.D., DiMaio, F., Tripathy, A., Kuhlman, B.

(2022) Protein Sci 31: 1-7

DOI: https://doi.org/10.1002/pro.4368

Macromolecule Content

Total Structure Weight: 11.25 kDa
Atom Count: 825
Modelled Residue Count: 85
Deposited Residue Count: 93
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
De novo designed protein, SEWN0.1	A	93	synthetic construct	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.87 Å
R-Value Free: 0.231
R-Value Work: 0.210
R-Value Observed: 0.213
Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 116.25	α = 90
b = 31	β = 93.071
c = 31.36	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing
SHELXE	model building
Coot	model building

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2022-06-29

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35GM131923

Revision History (Full details and data files)

Version 1.0: 2022-06-29
Type: Initial release
Version 1.1: 2024-02-28
Changes: Data collection
Version 1.2: 2024-04-03
Changes: Refinement description

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 R01GM133198.