9Q5C | pdb_00009q5c

Cryo EM structure of alpha-glucosidase (yicI) from Klebsiella aerogenes

PDB DOI: https://doi.org/10.2210/pdb9Q5C/pdb
EM Map EMD-72225: EMDB EMDataResource

Classification: HYDROLASE
Organism(s): Klebsiella aerogenes KCTC 2190
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2025-08-20 Released: 2025-09-03
Deposition Author(s): Lovell, S., Liu, L., Ingham, D.J., Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.19 Å
Aggregation State: 2D ARRAY
Reconstruction Method: SINGLE PARTICLE

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Cryo EM structure of alpha-glucosidase (yicI) from Klebsiella aerogenes

Liu, L., Lovell, S., Ingham, D.J.

To be published.

Macromolecule Content

Total Structure Weight: 531.9 kDa
Atom Count: 37,062
Modeled Residue Count: 4,626
Deposited Residue Count: 4,680
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-glucosidase yicI	A, B, C, D, E A, B, C, D, E, F	780	Klebsiella aerogenes KCTC 2190	Mutation(s): 7 Gene Names: EAE_06545 EC: 3.2.1.177
UniProt
Find proteins for A0A0H3FLJ3 (Klebsiella aerogenes (strain ATCC 13048 / DSM 30053 / CCUG 1429 / JCM 1235 / KCTC 2190 / NBRC 13534 / NCIMB 10102 / NCTC 10006 / CDC 819-56)) Explore A0A0H3FLJ3 Go to UniProtKB: A0A0H3FLJ3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A0H3FLJ3
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.19 Å
Aggregation State: 2D ARRAY
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	2.0_5778:
RECONSTRUCTION	cryoSPARC

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-09-03

Deposition Author(s):

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	75N93022C00036

Revision History (Full details and data files)

Version 1.0: 2025-09-03
Type: Initial release
Version 1.1: 2025-12-03
Changes: Data collection, Other

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.