8GOI

23-residues Heterotetramic Antiparallel Coiled-Coil Derived From LacI

PDB DOI: https://doi.org/10.2210/pdb8GOI/pdb

Classification: DE NOVO PROTEIN
Organism(s): Escherichia coli
Mutation(s): No

Deposited: 2022-08-25 Released: 2023-08-30
Deposition Author(s): Kumasaka, T.
Funding Organization(s): Japan Science and Technology

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.54 Å
R-Value Free:
0.281 (Depositor), 0.280 (DCC)
R-Value Work:
0.225 (Depositor), 0.220 (DCC)
R-Value Observed:
0.228 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Design of interchain Glu-Arg salt-bridges stabilizing heterotetrameric coiled-coil derived from Lac repressor.

Otsuka, Y., Osaki, A., Nakamura, Y., Mizuno, N., Kawamura, T., Hasegawa, K., Yamaguchi, H., Kumasaka, T.

To be published.

Macromolecule Content

Total Structure Weight: 20.32 kDa
Atom Count: 1,457
Modelled Residue Count: 178
Deposited Residue Count: 184
Unique protein chains: 2

Macromolecules

Find similar proteins by: Sequence | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lac23ys_aEE, an acidic mutant of LacI C-terminal tetramerization helix	A, C, E, G	23	Escherichia coli	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence LOADING

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Lac23ys_bRR, a basic mutant of LacI C-terminal tetramerization helix	B, D, F, H	23	Escherichia coli	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain I [auth B] SDF format, chain J [auth G] MOL2 format, chain I [auth B] MOL2 format, chain J [auth G] mmCIF format, chain I [auth B] mmCIF format, chain J [auth G]	I [auth B], J [auth G]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain I [auth B] Focus chain J [auth G] Interactions & Density Focus chain I [auth B] Focus chain J [auth G]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.54 Å
R-Value Free: 0.281 (Depositor), 0.280 (DCC)
R-Value Work: 0.225 (Depositor), 0.220 (DCC)
R-Value Observed: 0.228 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.967	α = 90
b = 42.973	β = 90
c = 85.923	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
MOLREP	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-08-30

Deposition Author(s):

Funding Organization	Location	Grant Number
Japan Science and Technology	Japan	JPMJAC1304

Revision History (Full details and data files)

Version 1.0: 2023-08-30
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.