MolNFT v1 · #61514 · protein

Structure of mdt protein

3DNU · Protein hipa: “Structure of mdt protein”. X-ray diffraction, 2 ligands (PO4, CL), 3 pockets (best druggability 0.79). MolNFT v1 #61514 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3DNU
Type: protein
Length: 410 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protein hipa
UniProt: P23874
Ligands: PO4, CL
Pockets: 3 · best druggability 0.79

Structure

x-ray diffraction · 1 distinct chain · 39% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Protein hipa	protein	410	39% helix, 22% strand	P23874

Ligands and binding sites

PO4 · Phosphate ion · ion · 3 copies · chains A
CL · Chloride ion · ion · chains A

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

Pockets

3 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	385	0.79	0.88	61	empty
2	101	0.42	0.77	28	empty
3	75	0.32	0.74	18	empty

Modifications

Observed in the structure: 9 modified (engineered).

Compared structures

3DNU · structure of MDT protein · the same entry in another collection · chain A against A, TM-score 1.00
P23874 · AlphaFold monomer V2.0 prediction for SERINE/THREONINE-protein kinase toxin hipa (P23874) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P23874
Elsewhere: RCSB PDB 3DNU · PDBe 3DNU · UniProt P23874

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