MolNFT v1 · #101240 · protein

Pria helicase bound to ssb C-terminal tail peptide

4NL8 · Single-stranded DNA-binding protein: “Pria helicase bound to ssb C-terminal tail peptide”. X-ray diffraction, 1 ligand (ZN), 20 pockets (best druggability 0.80). MolNFT v1 #101240 on GenesisL1: 3D structure, binding sites and…

PDB: 4NL8
Type: protein
Length: 1,697 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Single-stranded DNA-binding protein; Primosome assembly protein pria
UniProt: G8W6B0, A6TGC5
Ligands: ZN
Pockets: 20 · best druggability 0.80

Structure

x-ray diffraction · 5 distinct chains · 33% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
C, F	Single-stranded DNA-binding protein	protein	3	0% helix, 0% strand	G8W6B0
A	Primosome assembly protein pria	protein	549	34% helix, 22% strand	A6TGC5
D	Single-stranded DNA-binding protein	protein	5	0% helix, 0% strand	G8W6B0
B	Primosome assembly protein pria	protein	566	33% helix, 23% strand	A6TGC5
E	Primosome assembly protein pria	protein	571	33% helix, 22% strand	A6TGC5

Ligands and binding sites

ZN · Zinc ion · metal · 6 copies · chains A, B, E

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	396	0.80	0.89	76	empty
2	338	0.79	0.89	39	empty
3	729	0.79	0.83	91	empty
4	869	0.79	0.82	79	empty
5	292	0.78	0.90	53	empty

Interfaces

6 interfaces between chains.

A–E · 638 Å² buried · 9 hydrogen bonds · protein-protein
A–B · 566 Å² buried · 13 hydrogen bonds · protein-protein
D–B · 333 Å² buried · 1 hydrogen bond · protein-protein
F–E · 287 Å² buried · 2 hydrogen bonds · protein-protein
C–A · 265 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

4NL8 · PriA Helicase Bound to SSB C-terminal Tail Peptide · the same entry in another collection · chain C against C, 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 G8W6B0
Every structure of UniProt A6TGC5
Elsewhere: RCSB PDB 4NL8 · PDBe 4NL8 · UniProt G8W6B0 · UniProt A6TGC5

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