MolNFT v1 · #36857 · protein + DNA

Phage PHI29 transcription regulator P4-DNA complex

2FIO · DNA (41-mer): “Phage PHI29 transcription regulator P4-DNA complex”. X-ray diffraction, 2 pockets (best druggability 0.60). MolNFT v1 #36857 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2FIO
Type: protein + DNA
Length: 318 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA (41-mer); Late genes activator
UniProt: P03682
Pockets: 2 · best druggability 0.60

Structure

x-ray diffraction · 4 distinct chains · 46% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
C	DNA (41-mer)	dna	41	—	—
D	DNA (41-mer)	dna	41	—	—
A	Late genes activator	protein	123	46% helix, 14% strand	P03682
B	Late genes activator	protein	113	47% helix, 15% strand	P03682

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	192	0.60	0.82	21	empty
2	147	0.39	0.73	20	empty

Interfaces

6 interfaces between chains.

C–D · 1755 Å² buried · 138 hydrogen bonds · nucleic-nucleic
A–B · 847 Å² buried · 1 hydrogen bond · protein-protein
D–A · 401 Å² buried · 9 hydrogen bonds · protein-nucleic
C–B · 380 Å² buried · 8 hydrogen bonds · protein-nucleic
D–B · 259 Å² buried · 6 hydrogen bonds · protein-nucleic

Compared structures

2FIO · Phage phi29 transcription regulator p4-DNA complex · 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 P03682
Elsewhere: RCSB PDB 2FIO · PDBe 2FIO · UniProt P03682

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