2YR2 | pdb_00002yr2

Crystal Structure of the Hypothetical regulator from Sulfolobus tokodaii

PDB DOI: https://doi.org/10.2210/pdb2YR2/pdb

Classification: TRANSCRIPTION REGULATOR
Organism(s): Sulfurisphaera tokodaii
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2007-04-02 Released: 2007-10-02
Deposition Author(s): Kumarevel, T.S., Tanaka, T., Nishio, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.01 Å
R-Value Free:
0.279 (Depositor), 0.280 (DCC)
R-Value Work:
0.234 (Depositor), 0.234 (DCC)
R-Value Observed:
0.234 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal Structure of the Hypothetical regulator from Sulfolobus tokodaii

Kumarevel, T.S., Tanaka, T., Nishio, M., Yokoyama, S.

To be published.

Macromolecule Content

Total Structure Weight: 33.82 kDa
Atom Count: 2,551
Modeled Residue Count: 283
Deposited Residue Count: 292
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
146aa long hypothetical transcriptional regulator	A, B	146	Sulfurisphaera tokodaii	Mutation(s): 0
UniProt
Find proteins for Q96ZY1 (Sulfurisphaera tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7)) Explore Q96ZY1 Go to UniProtKB: Q96ZY1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q96ZY1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN Query on ZN Download:Ideal Coordinates CCD File SDF format, chain C [auth B] MOL2 format, chain C [auth B] mmCIF format, chain C [auth B]	C [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain C [auth B] Interactions & Density Focus chain C [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.01 Å
R-Value Free: 0.279 (Depositor), 0.280 (DCC)
R-Value Work: 0.234 (Depositor), 0.234 (DCC)
R-Value Observed: 0.234 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.258	α = 90
b = 41.928	β = 109.22
c = 70.579	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
BSS	data collection
HKL-2000	data reduction
HKL-2000	data scaling
CCP4	phasing
MOLREP	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2007-10-02

Deposition Author(s):

Kumarevel, T.S.

RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History (Full details and data files)

Version 1.0: 2007-10-02
Type: Initial release
Version 1.1: 2011-07-13
Changes: Derived calculations, Version format compliance
Version 1.2: 2023-10-25
Changes: Data collection, Database references, Derived calculations, Refinement description

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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.