› 3q8l

X-ray diffraction
2.32Å resolution

Crystal Structure of Human Flap Endonuclease FEN1 (WT) in complex with substrate 5'-flap DNA, SM3+, and K+

Released:
DOI: 10.2210/pdb3q8l/pdb
PDB entry 3q8l coloured by chain, front view.
PDB entry 3q8l coloured by chain, side view.
PDB entry 3q8l coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Human flap endonuclease structures, DNA double-base flipping, and a unified understanding of the FEN1 superfamily.
Tsutakawa SE, Classen S, Chapados BR, Arvai AS, Finger LD, Guenther G, Tomlinson CG, Thompson P, Sarker AH, Shen B, Cooper PK, Grasby JA, Tainer JA
Cell 145 198-211 (2011)
PMID: 21496641

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-116747 (preferred)
Entry contents:
1 distinct polypeptide molecule
3 distinct DNA molecules
Macromolecules (4 distinct):
Flap endonuclease 1 Chain: A
Molecule details ›
Chain: A
Length: 341 amino acids
Theoretical weight: 38.51 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P39748 (Residues: 2-336; Coverage: 88%)
Gene names: FEN1, RAD2
Sequence domains:
Structure domains:
DNA (5'-D(*AP*CP*TP*CP*TP*GP*CP*CP*TP*CP*AP*AP*GP*AP*CP*GP*GP*T)-3') Chain: D
Molecule details ›
Chain: D
Length: 18 nucleotides
Theoretical weight: 5.48 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*TP*TP*GP*AP*GP*GP*CP*AP*GP*AP*GP*T)-3') Chain: E
Molecule details ›
Chain: E
Length: 12 nucleotides
Theoretical weight: 3.74 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*AP*CP*CP*GP*TP*CP*C)-3') Chain: F
Molecule details ›
Chain: F
Length: 7 nucleotides
Theoretical weight: 2.06 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand SM 4 x SM
Ligand K 1 x K
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 12.3.1
Spacegroup: P3121
Unit cell:
a: 105.14Å b: 105.14Å c: 104.05Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.163 0.161 0.202
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

36 review citations

Base excision repair.
Krokan et al. (2013)
35 more

11 mentions without citation

Recognition and repair of chemically heterogeneous structures at DNA ends.
Andres et al. (2015)
10 more