MolNFT v1 · #42582 · protein + DNA

Structure of the xpf-single strand DNA complex

2KN7 · DNA repair endonuclease xpf: “Structure of the xpf-single strand DNA complex”. Solution nmr. MolNFT v1 #42582 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2KN7
Type: protein + DNA
Length: 154 residues
Chains: 4
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA repair endonuclease xpf; DNA (5'-D(*CP*AP*GP*TP*GP*GP*CP*TP*GP*A)-3')
EC: 3.1.-.-
UniProt: Q92889

Structure

solution nmr · 2 distinct chains · 61% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, D	DNA repair endonuclease xpf (EC 3.1.-.-)	protein	67	61% helix, 1% strand	Q92889
B, C	DNA (5'-D(CPAPGPTPGPGPCPTPGPA)-3')	dna	10	—	—

Interfaces

3 interfaces between chains.

A–D · 1240 Å² buried · 15 hydrogen bonds · protein-protein
D–C · 635 Å² buried · 21 hydrogen bonds · protein-nucleic
A–B · 608 Å² buried · 19 hydrogen bonds · protein-nucleic

Compared structures

2KN7 · Structure of the XPF-single strand DNA complex · the same entry in another collection · chain A against A, TM-score 1.00
Q92889 · AlphaFold monomer V2.0 prediction for DNA repair endonuclease xpf (Q92889) · a predicted model of the same protein · chain A against A, TM-score 0.87

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt Q92889
Elsewhere: RCSB PDB 2KN7 · PDBe 2KN7 · UniProt Q92889

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