Macromolecule Content

Total Structure Weight: 25186.12
Atom Count: 1951
Residue Count: 220
Unique protein chains: 1

2XU3

CATHEPSIN L WITH A NITRILE INHIBITOR

DOI: 10.2210/pdb2XU3/pdb

Classification: HYDROLASE
Organism(s): Homo sapiens
Expression System: Escherichia coli

Deposited: 2010-10-14 Released: 2011-01-12
Deposition Author(s): Banner, D.W., Benz, J.M., Haap, W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 0.9 Å
R-Value Free: 0.155
R-Value Work: 0.142

wwPDB Validation3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Systematic Investigation of Halogen Bonding in Protein-Ligand Interactions.

Hardegger, L.A., Kuhn, B., Spinnler, B., Anselm, L., Ecabert, R., Stihle, M., Gsell, B., Thoma, R., Diez, J., Benz, J., Plancher, J.M., Hartmann, G., Banner, D.W., Haap, W., Diederich, F.

(2011) Angew.Chem.Int.Ed.Engl. 50: 314

PubMed: 21184410 Search on PubMed
DOI: 10.1002/anie.201006781
Primary Citation of Related Structures:
2XU5, 2XU4, 2XU1

Macromolecules

Find similar proteins by: Sequence | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
CATHEPSIN L1	A	220	Homo sapiens	Mutation(s): 0 Gene Names: CTSL (CTSL1) EC: 3.4.22.15
Find proteins for P07711 (Homo sapiens) Go to Gene View: CTSL Go to UniProtKB: P07711
Protein Feature View Full Protein Feature View for P07711

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions	3D Interactions
CL Query on CL Download SDF File Download CCD File	A	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Ligand Interaction
XU3 Query on XU3 Download SDF File Download CCD File	A	(2S,4R)-4-(2-chlorophenyl)sulfonyl-1-[1-(5-chlorothiophen-2-yl)cyclopropyl]carbonyl-N-[1-(iminomethyl)cyclopropyl]pyrrolidine-2-carboxamide C₂₃ H₂₃ Cl₂ N₃ O₄ S₂ UKVPZPACPGTUIO-UPJLJTPPSA-N		Ligand Interaction
BTB Query on BTB Download SDF File Download CCD File	A	2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL BIS-TRIS BUFFER C₈ H₁₉ N O₅ OWMVSZAMULFTJU-UHFFFAOYSA-N		Ligand Interaction

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
XU3	IC50: 160 nM PDBBIND

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 0.9 Å
R-Value Free: 0.155
R-Value Work: 0.142
Space Group: P 1 2₁ 1

Unit Cell:

Length (Å)	Angle (°)
a = 44.441	α = 90.00
b = 49.394	β = 105.13
c = 46.129	γ = 90.00

Software Package:

Software Name	Purpose
SADABS	data scaling
XDS	data reduction
PHASER	phasing
REFMAC	refinement

Structure Validation

View Full Validation Report or Ramachandran Plots

Entry History

Deposition Data

Deposited Date: 2010-10-14
Released Date: 2011-01-12
Deposition Author(s): Banner, D.W., Benz, J.M., Haap, W.

Revision History

Version 1.0: 2011-01-12
Type: Initial release
Version 1.1: 2011-05-08
Type: Version format compliance
Version 1.2: 2011-07-13
Type: Version format compliance

RCSB PDB is funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.