MolNFT v1 · #14742 · protein

Putative spermidine synthetase from pyrococcus furiosus pfu-132382

1MJF · Spermidine synthase: “Putative spermidine synthetase from pyrococcus furiosus pfu-132382”. X-ray diffraction, 5 pockets (best druggability 0.61). MolNFT v1 #14742 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1MJF
Type: protein
Length: 540 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Spermidine synthase
EC: 2.5.1.16
UniProt: Q8U4G1
Pockets: 5 · best druggability 0.61

Structure

x-ray diffraction · 2 distinct chains · 32% helix, 33% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Spermidine synthase (EC 2.5.1.16)	protein	271	34% helix, 32% strand	Q8U4G1
B	Spermidine synthase (EC 2.5.1.16)	protein	269	30% helix, 33% strand	Q8U4G1

Pockets

5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	178	0.61	0.83	35	empty
2	160	0.61	0.84	34	empty
3	55	0.52	0.87	17	empty
4	58	0.50	0.86	19	empty
5	53	0.48	0.86	18	empty

Interfaces

1 interface between chains.

A–B · 1810 Å² buried · 29 hydrogen bonds · protein-protein

Compared structures

1MJF · Putative spermidine synthetase from pyrococcus furiosus pfu-132382 · the same entry in another collection · chain A against A, TM-score 1.00
Q8U4G1 · AlphaFold monomer V2.0 prediction for polyamine aminopropyltransferase (Q8U4G1) · a predicted model of the same protein · 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 Q8U4G1
Elsewhere: RCSB PDB 1MJF · PDBe 1MJF · UniProt Q8U4G1

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.