MolNFT v1 · #121366 · protein

Crystal structure of PRSA1 from listeria monocytogenes

5HTF · Foldase protein prsa 1: “Crystal structure of PRSA1 from listeria monocytogenes”. X-ray diffraction, 6 pockets (best druggability 0.52). MolNFT v1 #121366 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5HTF
Type: protein
Length: 522 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Foldase protein prsa 1
EC: 5.2.1.8
UniProt: Q8Y759
Pockets: 6 · best druggability 0.52

Structure

x-ray diffraction · 2 distinct chains · 56% helix, 12% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Foldase protein prsa 1 (EC 5.2.1.8)	protein	262	58% helix, 12% strand	Q8Y759
B	Foldase protein prsa 1 (EC 5.2.1.8)	protein	260	54% helix, 12% strand	Q8Y759

Ligands and binding sites

MPD · (4S)-2-methyl-2,4-pentanediol · additive · 2 copies · chains A, B

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	214	0.52	0.77	26	empty
2	243	0.51	0.75	30	empty
3	133	0.42	0.75	18	MPD
4	81	0.38	0.77	13	empty
5	67	0.34	0.77	9	MPD

Interfaces

1 interface between chains.

A–B · 1817 Å² buried · 22 hydrogen bonds · protein-protein

Compared structures

5HTF · Crystal Structure of PrsA1 from Listeria monocytogenes · the same entry in another collection · chain A against A, TM-score 1.00
Q8Y759 · AlphaFold monomer V2.0 prediction for foldase protein prsa 1 (Q8Y759) · 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 Q8Y759
Elsewhere: RCSB PDB 5HTF · PDBe 5HTF · UniProt Q8Y759

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