MolNFT v1 · #118924 · protein + DNA

Crystal structure of D. melanogaster pur-alpha repeat I-II in complex with DNA.

5FGP · CG1507-pb, isoform B: “Crystal structure of D. melanogaster pur-alpha repeat I-II in complex with DNA.”. X-ray diffraction, 2 ligands (CL, SO4), 2 pockets (best druggability 0.40). MolNFT v1 #118924 on GenesisL1: 3D structure…

PDB: 5FGP
Type: protein + DNA
Length: 151 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: CG1507-pb, isoform B; DNA
UniProt: Q9V4D9
Ligands: CL, SO4
Pockets: 2 · best druggability 0.40

Structure

x-ray diffraction · 2 distinct chains · 25% helix, 46% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	CG1507-pb, isoform B	protein	144	25% helix, 46% strand	Q9V4D9
B	DNA	dna	7	—	—

Ligands and binding sites

CL · Chloride ion · ion · chains A
SO4 · Sulfate ion · ion · chains B

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

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	103	0.40	0.77	18	empty
2	88	0.33	0.74	16	empty

Interfaces

1 interface between chains.

A–B · 565 Å² buried · 17 hydrogen bonds · protein-nucleic

Modifications

Observed in the structure: 4 modified (engineered).

Compared structures

5FGP · Crystal structure of D. melanogaster Pur-alpha repeat I-II in complex with DNA. · 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 Q9V4D9
Elsewhere: RCSB PDB 5FGP · PDBe 5FGP · UniProt Q9V4D9

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