5CE1 | pdb_00005ce1

Crystal Structure of Serine protease Hepsin in complex with Inhibitor

• PDB DOI: https://doi.org/10.2210/pdb5CE1/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2015-07-06 Released: 2016-07-06 
• Deposition Author(s): Rao, K.N., Anita, R.C., Sangeetha, R., Anirudha, L., Subramnay, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.281 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.187 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.192 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Serine protease Hepsin in complex with Inhibitor

Rao, K.N., Anita, R.C., Sangeetha, R., Anirudha, L., Subramnay, H.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 40.83 kDa 
• Atom Count: 2,696 
• Modeled Residue Count: 361 
• Deposited Residue Count: 372 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine protease hepsin	A	372	Homo sapiens	Mutation(s): 0  Gene Names: HPN, TMPRSS1 EC: 3.4.21.106
UniProt & NIH Common Fund Data Resources
Find proteins for P05981 (Homo sapiens) Explore P05981  Go to UniProtKB:  P05981
PHAROS:  P05981 GTEx:  ENSG00000105707

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
50K	B [auth A]	2-[6-(1-hydroxycyclohexyl)pyridin-2-yl]-1H-indole-5-carboximidamide C20 H22 N4 O VXVYXKAPTSJLCT-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
50K	BindingDB:  5CE1	Ki: 100 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.281 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.187 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.192 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.583	α = 90
b = 47.678	β = 105.3
c = 60.784	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-07-06 
Deposition Author(s): Rao, K.N., Anita, R.C., Sangeetha, R., Anirudha, L., Subramnay, H.

Revision History  

• Version 1.0: 2016-07-06
  Type: Initial release
  
• Version 1.1: 2018-10-17
  Changes: Data collection, Derived calculations, Source and taxonomy
• Version 1.2: 2023-11-08
  Changes: Data collection, Database references, Refinement description
• Version 1.3: 2024-11-06
  Changes: Structure summary