8UID | pdb_00008uid

Archaeal highly thermostable GH35 family beta-galactosidase from Desulfurococcus amyloliticus

PDB DOI: https://doi.org/10.2210/pdb8UID/pdb
EM Map EMD-42293: EMDB EMDataResource

Classification: HYDROLASE
Organism(s): Desulfurococcus amylolyticus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-10-10 Released: 2024-10-16
Deposition Author(s): Pichkur, E.B., Rychkov, G.N.
Funding Organization(s): Russian Science Foundation

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.81 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

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

Literature

Archaeal highly thermostable GH35 family beta-galactosidase DabetaGal has a unique seven domain protein fold revealed by Cryo-EM and X-ray structural analysis

Kil, Y., Pichkur, E.B.

To be published.

Macromolecule Content

Total Structure Weight: 221.4 kDa
Atom Count: 15,638
Modeled Residue Count: 1,930
Deposited Residue Count: 1,930
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-galactosidase	A, C	738	Desulfurococcus amylolyticus	Mutation(s): 0 Gene Names: DKAM_0402
UniProt
Find proteins for B8D3P7 (Desulfurococcus amylolyticus (strain DSM 18924 / JCM 16383 / VKM B-2413 / 1221n)) Explore B8D3P7 Go to UniProtKB: B8D3P7
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	B8D3P7
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-galactosidase	B, D	227	Desulfurococcus amylolyticus	Mutation(s): 0 Gene Names: DKAM_0402
UniProt
Find proteins for B8D3P7 (Desulfurococcus amylolyticus (strain DSM 18924 / JCM 16383 / VKM B-2413 / 1221n)) Explore B8D3P7 Go to UniProtKB: B8D3P7
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	B8D3P7
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.81 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2024-10-16

Deposition Author(s):

Funding Organization	Location	Grant Number
Russian Science Foundation	Russian Federation	19-74-20146

Revision History (Full details and data files)

Version 1.0: 2024-10-16
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.