7VU4 | pdb_00007vu4

de novo design based on 1r26

PDB DOI: https://doi.org/10.2210/pdb7VU4/pdb

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

Deposited: 2021-11-01 Released: 2022-06-08
Deposition Author(s): Zhang, L.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.225 (Depositor), 0.226 (DCC)
R-Value Work:
0.192 (Depositor), 0.194 (DCC)
R-Value Observed:
0.193 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Rotamer-free protein sequence design based on deep learning and self-consistency.

Zhang, L.

(2023) Nat Comput Sci

DOI: https://doi.org/10.1038/s43588-022-00273-6

Macromolecule Content

Total Structure Weight: 13.8 kDa
Atom Count: 1,004
Modeled Residue Count: 117
Deposited Residue Count: 121
Unique protein chains: 1

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
de novo design protein	A	121	synthetic construct	Mutation(s): 0

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.225 (Depositor), 0.226 (DCC)
R-Value Work: 0.192 (Depositor), 0.194 (DCC)
R-Value Observed: 0.193 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 26.772	α = 90
b = 52.651	β = 90
c = 67.192	γ = 90

Software Package:

Software Name	Purpose
Aimless	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
PHENIX	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2022-06-08

Deposition Author(s):