8QBR

Cryo-EM structure of Vipp1 helical filament with lattice 1 (Vipp1_L1)

PDB DOI: https://doi.org/10.2210/pdb8QBR/pdb
EM Map EMD-18318: EMDB EMDataResource

Classification: LIPID BINDING PROTEIN
Organism(s): Nostoc punctiforme
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-08-25 Released: 2024-09-18
Deposition Author(s): Naskar, S., Low, H.H.
Funding Organization(s): Wellcome Trust

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.74 Å
Aggregation State: FILAMENT
Reconstruction Method: HELICAL

wwPDB Validation 3D Report Full Report

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

Literature

Mechanism for Vipp1 spiral formation, ring biogenesis and membrane repair.

Naskar, S., Merino, A., Espadas, J., Singh, J., Roux, A., Colom, A., Low, H.H.

To be published.

Macromolecule Content

Total Structure Weight: 23.96 kDa
Atom Count: 1,671
Modelled Residue Count: 214
Deposited Residue Count: 214
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Membrane-associated protein Vipp1	A	214	Nostoc punctiforme	Mutation(s): 0 Gene Names: vipp1, Npun_R3963
UniProt
Find proteins for B2J6D9 (Nostoc punctiforme (strain ATCC 29133 / PCC 73102)) Explore B2J6D9 Go to UniProtKB: B2J6D9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	B2J6D9
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.74 Å
Aggregation State: FILAMENT
Reconstruction Method: HELICAL

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	4
MODEL REFINEMENT	Coot
MODEL REFINEMENT	ISOLDE
MODEL REFINEMENT	PHENIX

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2024-09-18

Deposition Author(s):

Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	215553/Z/19/Z

Revision History (Full details and data files)

Version 1.0: 2024-09-18
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 R01GM133198.