8S0L

Crystal structure of the TMPRSS2 zymogen in complex with the nanobody A07

• PDB DOI: https://doi.org/10.2210/pdb8S0L/pdb

• Classification: PROTEASE/NANOBODY INHIBITOR
• Organism(s): Homo sapiens, Vicugna pacos
• Expression System: Drosophila melanogaster, Escherichia coli
• Mutation(s): Yes 


• Deposited: 2024-02-14 Released: 2024-06-26 
• Deposition Author(s): Duquerroy, S., Fernandez, I., Rey, F.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.215 
• R-Value Work: 0.177 
• R-Value Observed: 0.179 

Literature

Structural insights into TMPRSS2 maturation and HKU1 binding

Fernandez, I., Saunders, N., Duquerroy, S., Boland, W.H., Arbabian, A., Baquero, E., Lafaye, P., Haouz, A., Buchrieser, J., Schwartz, O., Rey, F.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 59.97 kDa 
• Atom Count: 4,420 
• Modelled Residue Count: 499 
• Deposited Residue Count: 545 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transmembrane protease serine 2	A	395	Homo sapiens	Mutation(s): 1  Gene Names: TMPRSS2, PRSS10 EC: 3.4.21.122
UniProt & NIH Common Fund Data Resources
Find proteins for O15393 (Homo sapiens) Explore O15393  Go to UniProtKB:  O15393
PHAROS:  O15393 GTEx:  ENSG00000184012

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Nanobody A07	B	150	Vicugna pacos	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	C [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
CA	D [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.215 
• R-Value Work: 0.177 
• R-Value Observed: 0.179 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 182.665	α = 90
b = 53.808	β = 100.74
c = 65.477	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-06-26 
Deposition Author(s): Duquerroy, S., Fernandez, I., Rey, F.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-06-26
  Type: Initial release