2MLG | pdb_00002mlg

Stf76 from the Sulfolobus islandicus plasmid-virus pSSVx

PDB DOI: https://doi.org/10.2210/pdb2MLG/pdb
BMRB: 19821

Classification: DNA BINDING PROTEIN
Organism(s): Fuselloviridae
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2014-02-27 Released: 2014-03-12
Deposition Author(s): Farina, B., Russo, L., Fattorusso, R.

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 3000
Conformers Submitted: 20
Selection Criteria: structures with the lowest energy

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

Literature

Structural and functional studies of Stf76 from the Sulfolobus islandicus plasmid-virus pSSVx: a novel peculiar member of the winged helix-turn-helix transcription factor family.

Contursi, P., Farina, B., Pirone, L., Fusco, S., Russo, L., Bartolucci, S., Fattorusso, R., Pedone, E.

(2014) Nucleic Acids Res 42: 5993-6011

PubMed: 24682827 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1093/nar/gku215
Primary Citation Related Structures:
2MLG

PubMed Abstract:
The hybrid plasmid-virus pSSVx from Sulfolobus islandicus presents an open reading frame encoding a 76 amino acid protein, namely Stf76, that does not show significant sequence homology with any protein with known 3D structure. The recombinant protein recognizes specifically two DNA-binding sites located in its own promoter, thus suggesting an auto-regulated role of its expression. Circular dichroism, spectrofluorimetric, light scattering and isothermal titration calorimetry experiments indicated a 2:1 molar ratio (protein:DNA) upon binding to the DNA target containing a single site. Furthermore, the solution structure of Stf76, determined by nuclear magnetic resonance (NMR) using chemical shift Rosetta software, has shown that the protein assumes a winged helix-turn-helix fold. NMR chemical shift perturbation analysis has been performed for the identification of the residues responsible for DNA interaction. In addition, a model of the Stf76-DNA complex has been built using as template a structurally related homolog.

Organizational Affiliation

Dipartimento di Biologia, Università degli Studi di Napoli "Federico II", Napoli 80126, Italy.

Macromolecule Content

Total Structure Weight: 10.31 kDa
Atom Count: 657
Modeled Residue Count: 77
Deposited Residue Count: 84
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sulfolobus transcription factor 76 aminoacid protein, Stf76	A	84	Fuselloviridae	Mutation(s): 0
UniProt
Find proteins for O05472 (Saccharolobus islandicus) Explore O05472 Go to UniProtKB: O05472
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O05472
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: SOLUTION NMR
Conformers Calculated: 3000
Conformers Submitted: 20
Selection Criteria: structures with the lowest energy

Structure Validation

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Entry History

Deposition Data

Released Date: 2014-03-12

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-03-12
Type: Initial release
Version 1.1: 2014-06-04
Changes: Database references
Version 1.2: 2024-05-01
Changes: Data collection, Database references

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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.