› 8u8l

X-ray diffraction
2.2Å resolution

X-ray crystal structure of TEBP-2 MCD3 with ds DNA

Released:
DOI: 10.2210/pdb8u8l/pdb
PDB entry 8u8l coloured by chain, front view.
PDB entry 8u8l coloured by chain, side view.
PDB entry 8u8l coloured by chain, top view.
Source organisms:
Primary publication:
Caenorhabditis elegans telomere-binding proteins TEBP-1 and TEBP-2 adapt the Myb module to dimerize and bind telomeric DNA.
Padmanaban S, Lambacher NJ, Tesmer VM, Zhang J, Shibuya H, Nandakumar J
Proc Natl Acad Sci U S A 121 e2316651121 (2024)
PMID: 38588418

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-270828 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Double-strand telomeric DNA-binding proteins 2 Chains: A, B
Molecule details ›
Chains: A, B
Length: 125 amino acids
Theoretical weight: 14.72 KDa
Source organism: Caenorhabditis elegans
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q22429 (Residues: 352-475; Coverage: 15%)
Gene names: CELE_T12E12.3, T12E12.3, dtn-2, tebp-2
DNA (5'-D(*CP*TP*GP*TP*TP*AP*GP*GP*CP*TP*TP*AP*GP*GP*CP*TP*TP*AP*G)-3') Chain: D
Molecule details ›
Chain: D
Length: 19 nucleotides
Theoretical weight: 5.87 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(*TP*CP*TP*AP*AP*GP*CP*CP*TP*AP*AP*GP*CP*CP*TP*AP*AP*CP*A)-3') Chain: C
Molecule details ›
Chain: C
Length: 19 nucleotides
Theoretical weight: 5.76 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand CS 8 x CS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-D
Spacegroup: P212121
Unit cell:
a: 37.05Å b: 116.48Å c: 118.969Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.202 0.201 0.219
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

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