Macromolecule Content

Total Structure Weight: 70.22 kDa
Atom Count: 5,654
Modelled Residue Count: 638
Deposited Residue Count: 638
Unique protein chains: 2

3KFQ

Unreduced cathepsin V in complex with stefin A

PDB DOI: 10.2210/pdb3KFQ/pdb

Classification: Hydrolase/Hydrolase inhibitor
Organism(s): Homo sapiens
Expression System: Komagataella pastoris, Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2009-10-27 Released: 2010-11-03
Deposition Author(s): Renko, M., Turk, D.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.99 Å
R-Value Free: 0.219
R-Value Work: 0.176
R-Value Observed: 0.178

wwPDB Validation 3D Report Full Report

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

Literature

Unreduced cathepsin V in complex with stefin A

Renko, M., Turk, D.

To be published.

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cathepsin L2	A, B	221	Homo sapiens	Mutation(s): 2 Gene Names: CTSV, CATL2, CTSL2, CTSU, UNQ268/PRO305 EC: 3.4.22.43
UniProt & NIH Common Fund Data Resources
Find proteins for O60911 (Homo sapiens) Explore O60911 Go to UniProtKB: O60911
PHAROS: O60911
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O60911
Protein Feature View Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Cystatin-A	C, D	98	Homo sapiens	Mutation(s): 0 Gene Names: CSTA, STF1, STFA
UniProt & NIH Common Fund Data Resources
Find proteins for P01040 (Homo sapiens) Explore P01040 Go to UniProtKB: P01040
PHAROS: P01040
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P01040
Protein Feature View Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SCH Query on SCH	A, B	L-PEPTIDE LINKING	C₄ H₉ N O₂ S₂		CYS

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.99 Å
R-Value Free: 0.219
R-Value Work: 0.176
R-Value Observed: 0.178
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.313	α = 90
b = 107.29	β = 90
c = 115.98	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
AMoRE	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2010-11-03

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2010-11-03
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2017-11-01
Changes: Advisory, Refinement description

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.