6UI1

Crystal structure of BoNT/A-LCHn domain in complex with VHH ciA-D12, ciA-B5, and ciA-H7

• PDB DOI: https://doi.org/10.2210/pdb6UI1/pdb

• Classification: TOXIN/ANTITOXIN
• Organism(s): Clostridium botulinum, Vicugna pacos
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2019-09-29 Released: 2020-03-04 
• Deposition Author(s): Lam, K., Jin, R.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Institutes of Health/National Cancer Institute (NIH/NCI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.229 
• R-Value Work: 0.181 
• R-Value Observed: 0.183 

Literature

Structural Insights into Rational Design of Single-Domain Antibody-Based Antitoxins against Botulinum Neurotoxins

Lam, K., Tremblay, J.M., Vazquez-Cintron, E., Perry, K., Ondeck, C., Webb, R., McNutt, P.M., Shoemaker, C.B., Jin, R.

(2020) Cell Rep 30: 2526

• DOI: https://doi.org/10.1016/j.celrep.2020.01.107

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A1B1C1D1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 4-mer - A3B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 141.75 kDa 
• Atom Count: 10,088 
• Modelled Residue Count: 1,206 
• Deposited Residue Count: 1,260 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BoNT/A	A	873	Clostridium botulinum	Mutation(s): 0  Gene Names: a, A, boNT, bonta, ACP52_06670 EC: 3.4.24.69
UniProt
Find proteins for P0DPI1 (Clostridium botulinum (strain Hall / ATCC 3502 / NCTC 13319 / Type A)) Explore P0DPI1  Go to UniProtKB:  P0DPI1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
ciA-H7	B	123	Vicugna pacos	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
ciA-D12	C	134	Vicugna pacos	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
ciA-B5	D	130	Vicugna pacos	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.229 
• R-Value Work: 0.181 
• R-Value Observed: 0.183 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 141.04	α = 90
b = 89.36	β = 118.93
c = 143.69	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	refinement
Blu-Ice	data collection
SCALA	data scaling
PHASER	phasing
XDS	data reduction

Structure Validation

Currently 6UI1 does not have a validation slider image.

Entry History & Funding Information

Deposition Data

• Released Date: 2020-03-04 
Deposition Author(s): Lam, K., Jin, R.

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

Revision History  

• Version 1.0: 2020-03-04
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Data collection, Database references, Refinement description