4UEE | pdb_00004uee

Crystal structure of the human CARBOXYPEPTIDASE A1 in complex with the PHOSPHINIC INHIBITOR Acetyl-Leu-Ala-Y(PO2CH2)-homoPhe-OH

• PDB DOI: https://doi.org/10.2210/pdb4UEE/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Komagataella pastoris
• Mutation(s): No 


• Deposited: 2014-12-17 Released: 2016-01-20 
• Deposition Author(s): Gallego, P., Covaleda, G., Costenaro, L., Devel, L., Dive, V., Aviles, F.X., Reverter, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.27 Å
• R-Value Free: 
  0.225 (Depositor) 
• R-Value Work: 
  0.154 (Depositor) 
• R-Value Observed: 
  0.157 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of the Human Carboxypeptidase A1 in Complex with Phosphinic Inhibitors

Gallego, P., Covaleda, G., Devel, L., Dive, V., Aviles, F.X., Reverter, D.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 70.42 kDa 
• Atom Count: 5,186 
• Modeled Residue Count: 613 
• Deposited Residue Count: 618 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CARBOXYPEPTIDASE A1	A, B	309	Homo sapiens	Mutation(s): 0  EC: 3.4.17.1
UniProt & NIH Common Fund Data Resources
Find proteins for P15085 (Homo sapiens) Explore P15085  Go to UniProtKB:  P15085
PHAROS:  P15085 GTEx:  ENSG00000091704

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
LA9	C [auth A], E [auth B]	(2S)-2-{[(R)-{(1R)-1-[(N-acetyl-L-leucyl)amino]ethyl}(hydroxy)phosphoryl]methyl}-4-phenylbutanoic acid C21 H33 N2 O6 P PRXYUEILDUCTTM-QRQLOZEOSA-N
ZN	D [auth A], F [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
LA9	BindingDB:  4UEE	Ki: min: 0.09, max: 0.47 (nM) from 3 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.27 Å
• R-Value Free:  0.225 (Depositor) 
• R-Value Work:  0.154 (Depositor) 
• R-Value Observed: 0.157 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.298	α = 90
b = 83.983	β = 90
c = 157.096	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XPS	data reduction
CCP4I	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-01-20 
Deposition Author(s): Gallego, P., Covaleda, G., Costenaro, L., Devel, L., Dive, V., Aviles, F.X., Reverter, D.

Revision History  

• Version 1.0: 2016-01-20
  Type: Initial release
  
• Version 1.1: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description
• Version 1.2: 2024-10-23
  Changes: Structure summary