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DNA-bound PRN1 helix bundle domain with ATP and magnesium in the interaction buffer

Analyse DNA-bound PRN1 helix bundle domain with ATP and magnesium in the interaction… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6GVQ
Type: protein + DNA
Length: 124 residues
Chains: 2
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA (5'-D(*CP*TP*GP*TP*GP*CP*TP*CP*A)-3'); Functional PRN1 primase
UniProt: Q54324
Pockets: 2 · best druggability 0.48

Structure

solution nmr · 2 distinct chains · 65% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	DNA (5'-D(CPTPGPTPGPCPTPCP*A)-3')	dna	9	—	—
B	Functional PRN1 primase	protein	115	65% helix, 0% strand	Q54324

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	91	0.48	0.81	19	empty
2	111	0.43	0.77	20	empty

Interfaces

1 interface between chains.

A–B · 717 Å² buried · 5 hydrogen bonds · protein-nucleic

Modifications

Observed in the structure: 1 disulfide (disulfide).

Compared structures

6GVQ · DNA-bound pRN1 helix bundle domain with ATP and magnesium in the interaction buffer · the same entry in another collection · chain A against A, 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
Every structure of UniProt Q54324
Elsewhere: RCSB PDB 6GVQ · PDBe 6GVQ · UniProt Q54324

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