MolNFT v1 · #121042 · protein

The apo form of DPS4 from nostoc punctiforme

5HJF · Ferritin, dps family protein: “The apo form of DPS4 from nostoc punctiforme”. X-ray diffraction, 5 pockets (best druggability 0.55). MolNFT v1 #121042 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5HJF
Type: protein
Length: 722 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ferritin, dps family protein
UniProt: B2J981
Pockets: 5 · best druggability 0.55

Structure

x-ray diffraction · 2 distinct chains · 68% helix, 2% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C	Ferritin, dps family protein	protein	179	69% helix, 2% strand	B2J981
D	Ferritin, dps family protein	protein	185	67% helix, 2% strand	B2J981

Pockets

5 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	173	0.55	0.80	29	empty
2	177	0.49	0.77	26	empty
3	163	0.46	0.76	26	empty
4	105	0.41	0.77	16	empty
5	54	0.31	0.76	11	empty

Interfaces

4 interfaces between chains.

A–B · 2160 Å² buried · 43 hydrogen bonds · protein-protein
C–D · 2152 Å² buried · 43 hydrogen bonds · protein-protein
A–D · 1112 Å² buried · 17 hydrogen bonds · protein-protein
A–C · 799 Å² buried · 12 hydrogen bonds · protein-protein

Compared structures

5HJF · The apo form of Dps4 from Nostoc punctiforme · 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 B2J981
Elsewhere: RCSB PDB 5HJF · PDBe 5HJF · UniProt B2J981

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