1WOL | pdb_00001wol

Crystal Structure of ST0689, an archaeal HEPN homologue

PDB DOI: https://doi.org/10.2210/pdb1WOL/pdb

Classification: UNKNOWN FUNCTION
Organism(s): Sulfurisphaera tokodaii str. 7
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2004-08-20 Released: 2005-11-22
Deposition Author(s): Arakawa, T., Akutsu, J., Yohda, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.62 Å
R-Value Free:
0.222 (Depositor), 0.225 (DCC)
R-Value Work:
0.187 (Depositor), 0.193 (DCC)
R-Value Observed:
0.187 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 1WOL

This is version 1.3 of the entry. See complete history.

Literature

Crystal Structure Analysis of ST0689, an archaeal HEPN protein

Arakawa, T., Akutsu, J., Yohda, M.

To be published.

Macromolecule Content

Total Structure Weight: 14.33 kDa
Atom Count: 1,091
Modeled Residue Count: 122
Deposited Residue Count: 122
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
122aa long conserved hypothetical protein	A	122	Sulfurisphaera tokodaii str. 7	Mutation(s): 0
UniProt
Find proteins for Q974G3 (Sulfurisphaera tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7)) Explore Q974G3 Go to UniProtKB: Q974G3
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q974G3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TBU Query on TBU Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain B [auth A] mmCIF format, chain C [auth A] mmCIF format, chain B [auth A]	B [auth A], C [auth A]	TERTIARY-BUTYL ALCOHOL C₄ H₁₀ O DKGAVHZHDRPRBM-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.62 Å
R-Value Free: 0.222 (Depositor), 0.225 (DCC)
R-Value Work: 0.187 (Depositor), 0.193 (DCC)
R-Value Observed: 0.187 (Depositor)

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.553	α = 90
b = 62.553	β = 90
c = 64.01	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2005-11-22

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2005-11-22
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Source and taxonomy, Version format compliance
Version 1.3: 2024-11-13
Changes: Data collection, Database references, Derived calculations, Structure summary

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.