5LWF | pdb_00005lwf

Structure of a single domain camelid antibody fragment cAb-G10S in complex with the BlaP beta-lactamase from Bacillus licheniformis

• PDB DOI: https://doi.org/10.2210/pdb5LWF/pdb

• Classification: HYDROLASE
• Organism(s): Bacillus licheniformis, Lama glama
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-09-16 Released: 2017-11-15 
• Deposition Author(s): Vettore, N., Kerff, F., Pain, C., Herman, R., Sauvage, E., Preumont, S., Charlier, P., Dumoulin, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.56 Å
• R-Value Free: 
  0.242 (Depositor), 0.238 (DCC) 
• R-Value Work: 
  0.215 (Depositor) 
• R-Value Observed: 
  0.217 (Depositor) 

Literature

Probing the mechanism of aggregation of polyQ model proteins with camelid heavy-chain antibody fragments

Vettore, N., Kerff, F., Pain, C., Herman, R., Sauvage, E., Preumont, S., Charlier, P., Dumoulin, M.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 90.29 kDa 
• Atom Count: 5,927 
• Modeled Residue Count: 757 
• Deposited Residue Count: 808 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-lactamase	A, B	273	Bacillus licheniformis	Mutation(s): 0  Gene Names: penP, blaP EC: 3.5.2.6
UniProt
Find proteins for P00808 (Bacillus licheniformis) Explore P00808  Go to UniProtKB:  P00808

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Camelid heavy-chain antibody variable fragment cAb-G10S	C, D	131	Lama glama	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	E [auth A], F [auth A], G [auth C], H [auth C], I [auth D]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.56 Å
• R-Value Free:  0.242 (Depositor), 0.238 (DCC) 
• R-Value Work:  0.215 (Depositor) 
• R-Value Observed: 0.217 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.278	α = 90
b = 121.691	β = 90
c = 137.029	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
XDS	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-11-15 
Deposition Author(s): Vettore, N., Kerff, F., Pain, C., Herman, R., Sauvage, E., Preumont, S., Charlier, P., Dumoulin, M.

Revision History  

• Version 1.0: 2017-11-15
  Type: Initial release
  
• Version 1.1: 2019-10-16
  Changes: Data collection
• Version 1.2: 2024-10-23
  Changes: Data collection, Database references, Structure summary