› 8j4b

X-ray diffraction
2Å resolution

Crystal structure of OY phytoplasma SAP05 in complex with AtSPL13

Released:
DOI: 10.2210/pdb8j4b/pdb
PDB entry 8j4b coloured by chain, front view.
PDB entry 8j4b coloured by chain, side view.
PDB entry 8j4b coloured by chain, top view.
Source organisms:
Primary publication:
Molecular basis of SAP05-mediated ubiquitin-independent proteasomal degradation of transcription factors.
Yan X, Yuan X, Lv J, Zhang B, Huang Y, Li Q, Ma J, Li Y, Wang X, Li Y, Yu Y, Liu Q, Liu T, Mi W, Dong C
Nat Commun 15 1170 (2024)
PMID: 38326322

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-244088 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Sequence-variable mosaic (SVM) signal sequence domain-containing protein Chains: A, C
Molecule details ›
Chains: A, C
Length: 104 amino acids
Theoretical weight: 12.29 KDa
Source organism: Onion yellows phytoplasma OY-M
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6YQ57 (Residues: 33-135; Coverage: 76%)
Gene name: PAM_518
Squamosa promoter-binding-like protein 13B Chains: B, D
Molecule details ›
Chains: B, D
Length: 66 amino acids
Theoretical weight: 7.69 KDa
Source organism: Arabidopsis thaliana
Expression system: Escherichia coli
UniProt:
  • Canonical: P0DI11 (Residues: 98-162; Coverage: 18%)
Gene names: At5g50670, MFB16.6, SPL13, SPL13B
Sequence domains: SBP domain

Ligands and Environments

1 bound ligand:
Ligand ZN 4 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL18U1
Spacegroup: P21212
Unit cell:
a: 90.92Å b: 63.35Å c: 68.56Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.177 0.175 0.213
Expression system: Escherichia coli

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