2L83 | pdb_00002l83

A protein from Haloferax volcanii

PDB DOI: https://doi.org/10.2210/pdb2L83/pdb
BMRB: 17391

Classification: PROTEIN BINDING
Organism(s): Haloferax volcanii DS2
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2011-01-03 Released: 2012-01-11
Deposition Author(s): Zhang, W., Liao, S., Fan, K., Tu, X.

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 200
Conformers Submitted: 20
Selection Criteria: structures with the lowest energy

wwPDB Validation 3D Report Full Report

Validation slider image for 2L83

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

Literature

Ionic strength-dependent conformations of a ubiquitin-like small archaeal modifier protein (SAMP1) from Haloferax volcanii.

Ye, K., Liao, S., Zhang, W., Fan, K., Zhang, X., Zhang, J., Xu, C., Tu, X.

(2013) Protein Sci 22: 1174-1182

PubMed: 23818097 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1002/pro.2302
Primary Citation Related Structures:
2L83

PubMed Abstract:
Eukaryotic ubiquitin and ubiquitin-like systems play crucial roles in various cellular biological processes. In this work, we determined the solution structure of SAMP1 from Haloferax volcanii by NMR spectroscopy. Under low ionic conditions, SAMP1 presented two distinct conformations, one folded β-grasp and the other disordered. Interestingly, SAMP1 underwent a conformational conversion from disorder to order with ion concentration increasing, indicating that the ordered conformation is the functional form of SAMP1 under the physiological condition of H. volcanii. Furthermore, SAMP1 could interact with proteasome-activating nucleotidase B, supposing a potential role of SAMP1 in the protein degradation pathway mediated by proteasome.

Organizational Affiliation

Hefei National Laboratory for Physical Sciences at Microscale, School of Life Science, University of Science and Technology of China, Hefei, Anhui, 230026, People's Republic of China.

Macromolecule Content

Total Structure Weight: 10.01 kDa
Atom Count: 629
Modeled Residue Count: 87
Deposited Residue Count: 95
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Small archaeal modifier protein 1	A	95	Haloferax volcanii DS2	Mutation(s): 0
UniProt
Find proteins for D4GUF6 (Haloferax volcanii (strain ATCC 29605 / DSM 3757 / JCM 8879 / NBRC 14742 / NCIMB 2012 / VKM B-1768 / DS2)) Explore D4GUF6 Go to UniProtKB: D4GUF6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	D4GUF6
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: SOLUTION NMR
Conformers Calculated: 200
Conformers Submitted: 20
Selection Criteria: structures with the lowest energy

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2012-01-11

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2012-01-11
Type: Initial release
Version 1.1: 2020-07-29
Changes: Database references
Version 1.2: 2023-06-14
Changes: Database references, Other
Version 1.3: 2024-05-15
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.