8S7I | pdb_00008s7i

Fructose 6-phosphate aldolase, L107C/A129G/R134V/L163C/S166G mutant

PDB DOI: https://doi.org/10.2210/pdb8S7I/pdb
EM Map EMD-19773: EMDB EMDataResource

Classification: LYASE
Organism(s): Escherichia coli BL21
Expression System: Escherichia coli BL21
Mutation(s): Yes

Deposited: 2024-03-01 Released: 2025-03-12
Deposition Author(s): Hebert, H., Widersten, M.
Funding Organization(s): Other private

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.20 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

The Structure of an Engineered Aldolase Catalyzing Carboligation of Arylated Ketones and Aldehydes, Capturing the Iminium Reaction Intermediate, Points Towards a Conserved Tyrosine Residue as Catalytic Acid/Base

Hebert, H., Widersten, M.

To be published.

Macromolecule Content

Total Structure Weight: 238.91 kDa
Atom Count: 16,372
Modeled Residue Count: 2,200
Deposited Residue Count: 2,270
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fructose-6-phosphate aldolase 1	A, B, C, D, E A, B, C, D, E, F, G, H, I, J	227	Escherichia coli BL21	Mutation(s): 5 Gene Names: fsaA, fsa, mipB, ybiZ, b0825, JW5109 EC: 4.1.2
UniProt
Find proteins for P78055 (Escherichia coli (strain K12)) Explore P78055 Go to UniProtKB: P78055
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P78055
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
A1H5N Query on A1H5N	A, B, C, D, E A, B, C, D, E, F, G, H, I, J	L-PEPTIDE LINKING	C₁₄ H₂₀ N₂ O₃		LYS

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.20 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX
RECONSTRUCTION	RELION

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-03-12

Deposition Author(s):

Funding Organization	Location	Grant Number
Other private	Sweden	218-0061

Revision History (Full details and data files)

Version 1.0: 2025-03-12
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.