3L18 | pdb_00003l18

Ton1285, an Intracellular Protease from Thermococcus onnurineus NA1

PDB DOI: https://doi.org/10.2210/pdb3L18/pdb

Classification: HYDROLASE
Organism(s): Thermococcus onnurineus NA1
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2009-12-11 Released: 2010-12-15
Deposition Author(s): Jung, H.J., Cha, S.S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.78 Å
R-Value Free:
0.215 (Depositor), 0.210 (DCC)
R-Value Work:
0.160 (Depositor), 0.160 (DCC)
R-Value Observed:
0.163 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Structure Based Classification of the DJ-1 Superfamily: The Relationship between Homologous Structures and Various Functions

Jung, H.J., Cha, S.S.

To be published.

Macromolecule Content

Total Structure Weight: 37.78 kDa
Atom Count: 2,916
Modeled Residue Count: 335
Deposited Residue Count: 336
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Intracellular protease I	A, B	168	Thermococcus onnurineus NA1	Mutation(s): 0 Gene Names: intracellular protease I
UniProt
Find proteins for B6YXG0 (Thermococcus onnurineus (strain NA1)) Explore B6YXG0 Go to UniProtKB: B6YXG0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	B6YXG0
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.78 Å
R-Value Free: 0.215 (Depositor), 0.210 (DCC)
R-Value Work: 0.160 (Depositor), 0.160 (DCC)
R-Value Observed: 0.163 (Depositor)

Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.114	α = 90
b = 87.114	β = 90
c = 80.119	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
CCP4	model building
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
CCP4	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2010-12-15

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2010-12-15
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2023-11-01
Changes: Data collection, Database references, Refinement description

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729.