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Crystal structure of superfamily 2 helicase HEL308 in complex with unwound DNA

Analyse Crystal structure of superfamily 2 helicase HEL308 in complex with unwound DNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2P6R
Type: protein + DNA
Length: 723 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 25-mer; 5'- D(*CP*TP*AP*GP*AP*GP*AP*CP*TP*AP*TP*CP*GP*AP*T)-3'; AFUHEL308 helicase
Pockets: 4 · best druggability 0.82

Structure

x-ray diffraction · 3 distinct chains · 51% helix, 12% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
X	25-mer	dna	25	—	—
Y	5'- D(CPTPAPGPAPGPAPCPTPAPTPCPGPAP*T)-3'	dna	15	—	—
A	AFUHEL308 helicase	protein	683	51% helix, 12% strand	—

Pockets

4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1138	0.82	0.83	102	empty
2	970	0.82	0.83	80	empty
3	671	0.72	0.79	54	empty
4	115	0.39	0.75	18	empty

Interfaces

3 interfaces between chains.

X–A · 1930 Å² buried · 48 hydrogen bonds · protein-nucleic
X–Y · 566 Å² buried · 54 hydrogen bonds · nucleic-nucleic
Y–A · 503 Å² buried · 15 hydrogen bonds · protein-nucleic

Compared structures

2P6R · Crystal structure of superfamily 2 helicase Hel308 in complex with unwound DNA · the same entry in another collection · chain X against X, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 2P6R · PDBe 2P6R

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