Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Predict Membrane 

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 83.28 kDa 
• Atom Count: 5267 
• Modelled Residue Count: 672 
• Deposited Residue Count: 747 
• Unique protein chains: 1

7LQ6

CryoEM structure of Escherichia coli PBP1b

• PDB DOI: 10.2210/pdb7LQ6/pdb
• EM Map EMD-23482: EMDB EMDataResource

• Classification: TRANSFERASE, HYDROLASE
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  mpstruc


• Deposited: 2021-02-13 Released: 2021-05-26 
• Deposition Author(s): Caveney, N.A., Workman, S.D., Yan, R., Atkinson, C.E., Yu, Z., Strynadka, N.C.J.
• Funding Organization(s): Canadian Institutes of Health Research (CIHR)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.28 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

CryoEM structure of the antibacterial target PBP1b at 3.3 angstrom resolution.

Caveney, N.A., Workman, S.D., Yan, R., Atkinson, C.E., Yu, Z., Strynadka, N.C.J.

(2021) Nat Commun 12: 2775-2775

• PubMed: 33986273 
• DOI: 10.1038/s41467-021-23063-6
• Primary Citation of Related Structures:  
  7LQ6


• PubMed Abstract: 
  

The pathway for the biosynthesis of the bacterial cell wall is one of the most prolific antibiotic targets, exemplified by the widespread use of β-lactam antibiotics. Despite this, our structural understanding of class A penicillin binding proteins, which perform the last two steps in this pathway, is incomplete due to the inherent difficulty in their crystallization and the complexity of their substrates. Here, we determine the near atomic resolution structure of the 83 kDa class A PBP from Escherichia coli, PBP1b, using cryogenic electron microscopy and a styrene maleic acid anhydride membrane mimetic. PBP1b, in its apo form, is seen to exhibit a distinct conformation in comparison to Moenomycin-bound crystal structures. The work herein paves the way for the use of cryoEM in structure-guided antibiotic development for this notoriously difficult to crystalize class of proteins and their complex substrates.

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Organizational Affiliation: 

HRMEM Facility, University of British Columbia, Vancouver, BC, Canada. [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Penicillin-binding protein 1B	A	747	Escherichia coli K-12	Mutation(s): 0  Gene Names: mrcB, pbpF, ponB, b0149, JW0145 EC: 2.4.1.129 (PDB Primary Data), 3.4.16.4 (PDB Primary Data) Membrane Entity: Yes
UniProt
Find proteins for P02919 (Escherichia coli (strain K12)) Explore P02919  Go to UniProtKB:  P02919

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.28 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2021-02-13 
• Released Date: 2021-05-26 
Deposition Author(s): Caveney, N.A., Workman, S.D., Yan, R., Atkinson, C.E., Yu, Z., Strynadka, N.C.J.

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Funding Organization	Location	Grant Number
Canadian Institutes of Health Research (CIHR)	Canada	--

Revision History  

• Version 1.0: 2021-05-26
  Type: Initial release