MolNFT v1 · #135805 · protein

Phosphoglycerol transferase gach from streptococcus pyogenes

5U9Z: “Phosphoglycerol transferase gach from streptococcus pyogenes”. X-ray diffraction, 1 ligand (MN), 6 pockets (best druggability 0.71). MolNFT v1 #135805 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5U9Z
Type: protein
Length: 760 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Phosphoglycerol transferase
UniProt: A0A127X8Q2
Ligands: MN
Pockets: 6 · best druggability 0.71

Structure

x-ray diffraction · 1 distinct chain · 43% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Phosphoglycerol transferase	protein	380	43% helix, 16% strand	A0A127X8Q2

Ligands and binding sites

MN · Manganese (II) ion · metal · 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, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	579	0.71	0.80	87	empty
2	82	0.41	0.79	22	empty
3	65	0.38	0.79	21	empty
4	98	0.38	0.75	23	empty
5	68	0.34	0.76	17	empty

Interfaces

1 interface between chains.

A–B · 988 Å² buried · 15 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 12 modified (engineered).

Compared structures

5U9Z · Phosphoglycerol transferase GacH from Streptococcus pyogenes · 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 A0A127X8Q2
Elsewhere: RCSB PDB 5U9Z · PDBe 5U9Z · UniProt A0A127X8Q2

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