MolNFT v1 · #113943 · protein

Yeast pyruvyltransferase PVG1P

5AX7 · Pyruvyl transferase 1: “Yeast pyruvyltransferase PVG1P”. X-ray diffraction, 1 ligand (ZN), 9 pockets (best druggability 0.67). MolNFT v1 #113943 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5AX7
Type: protein
Length: 662 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Pyruvyl transferase 1
EC: 2.-.-.-
UniProt: Q9UT27
Ligands: ZN
Pockets: 9 · best druggability 0.67

Structure

x-ray diffraction · 2 distinct chains · 47% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Pyruvyl transferase 1 (EC 2.-.-.-)	protein	333	47% helix, 17% strand	Q9UT27
B	Pyruvyl transferase 1 (EC 2.-.-.-)	protein	329	47% helix, 17% strand	Q9UT27

Ligands and binding sites

ZN · Zinc ion · metal · chains B

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

Pockets

9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	394	0.67	0.80	45	empty
2	360	0.64	0.79	41	empty
3	136	0.62	0.85	19	empty
4	238	0.59	0.79	49	empty
5	201	0.49	0.76	24	empty

Interfaces

1 interface between chains.

A–B · 1008 Å² buried · 1 hydrogen bond · protein-protein

Modifications

Observed in the structure: 2 disulfide (disulfide).

Compared structures

5AX7 · yeast pyruvyltransferase Pvg1p · the same entry in another collection · chain A against A, TM-score 1.00
Q9UT27 · AlphaFold monomer V2.0 prediction for pyruvyl transferase 1 (Q9UT27) · a predicted model of the same protein · chain B 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 Q9UT27
Elsewhere: RCSB PDB 5AX7 · PDBe 5AX7 · UniProt Q9UT27

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