MolNFT v1 · #11322 · protein + DNA

Human papillomavirus type 18 E2 DNA-binding domain bound to its DNA target

1JJ4 · E2 binding site DNA: “Human papillomavirus type 18 E2 DNA-binding domain bound to its DNA target”. X-ray diffraction, 1 pocket (best druggability 0.44). MolNFT v1 #11322 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1JJ4
Type: protein + DNA
Length: 182 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: E2 binding site DNA; Regulatory protein E2
UniProt: P06790
Pockets: 1 · best druggability 0.44

Structure

x-ray diffraction · 3 distinct chains · 35% helix, 36% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
C, D	E2 binding site DNA	dna	16	—	—
A	Regulatory protein E2	protein	74	34% helix, 38% strand	P06790
B	Regulatory protein E2	protein	76	36% helix, 34% strand	P06790

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	92	0.44	0.80	22	empty

Interfaces

6 interfaces between chains.

A–B · 840 Å² buried · 20 hydrogen bonds · protein-protein
C–D · 726 Å² buried · 57 hydrogen bonds · nucleic-nucleic
C–A · 374 Å² buried · 11 hydrogen bonds · protein-nucleic
D–B · 367 Å² buried · 12 hydrogen bonds · protein-nucleic
C–B · 289 Å² buried · 5 hydrogen bonds · protein-nucleic

Compared structures

1JJ4 · Human papillomavirus type 18 E2 DNA-binding domain bound to its DNA target · 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 P06790
Elsewhere: RCSB PDB 1JJ4 · PDBe 1JJ4 · UniProt P06790

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