› 2dzn

X-ray diffraction
2.2Å resolution

Crystal structure analysis of yeast Nas6p complexed with the proteasome subunit, rpt3

Released:
DOI: 10.2210/pdb2dzn/pdb
PDB entry 2dzn coloured by chain, front view.
PDB entry 2dzn coloured by chain, side view.
PDB entry 2dzn coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Structural basis for the recognition between the regulatory particles Nas6 and Rpt3 of the yeast 26S proteasome.
Nakamura Y, Umehara T, Tanaka A, Horikoshi M, Padmanabhan B, Yokoyama S
Biochem Biophys Res Commun 359 503-9 (2007)
PMID: 17555716

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-152574 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Probable 26S proteasome regulatory subunit p28 Chains: A, C, E
Molecule details ›
Chains: A, C, E
Length: 228 amino acids
Theoretical weight: 25.65 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P50086 (Residues: 1-228; Coverage: 100%)
Gene names: G8564, NAS6, YGR232W
Sequence domains: Ankyrin repeat
Structure domains: Ankyrin repeat-containing domain
26S proteasome regulatory subunit 6B homolog Chains: B, D, F
Molecule details ›
Chains: B, D, F
Length: 82 amino acids
Theoretical weight: 9.21 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P33298 (Residues: 348-428; Coverage: 19%)
Gene names: D9509.14, RPT3, YDR394W, YNT1, YTA2
Structure domains: Helicase, Ruva Protein; domain 3

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: P21
Unit cell:
a: 60.376Å b: 100.22Å c: 72.203Å
α: 90° β: 94.7° γ: 90°
R-values:
R R work R free
0.197 0.197 0.265
Expression system: Escherichia coli

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Citations

9 review citations

Recognition and processing of ubiquitin-protein conjugates by the proteasome.
Finley D. (2009)
8 more

14 mentions without citation

Molecular architecture and assembly of the eukaryotic proteasome.
Tomko et al. (2013)
13 more