MolNFT v1 · #145000 · protein

Crystal structure of escherichia COLI uppp

6CB2 · Undecaprenyl-diphosphatase: “Crystal structure of escherichia COLI uppp”. X-ray diffraction, 1 ligand (SO4), 3 pockets (best druggability 0.78). MolNFT v1 #145000 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6CB2
Type: protein
Length: 270 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Undecaprenyl-diphosphatase
EC: 3.6.1.27
UniProt: P60932
Ligands: SO4
Pockets: 3 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 72% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Undecaprenyl-diphosphatase (EC 3.6.1.27)	protein	270	72% helix, 1% strand	P60932

Ligands and binding sites

SO4 · Sulfate ion · ion · 4 copies · chains A
OLC · (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate · additive · 5 copies · 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	696	0.78	0.83	53	OLC
2	75	0.33	0.75	15	empty
3	53	0.33	0.76	13	empty

Compared structures

6CB2 · Crystal structure of Escherichia coli UppP · the same entry in another collection · chain A against A, TM-score 1.00
P60932 · AlphaFold monomer V2.0 prediction for undecaprenyl-diphosphatase (P60932) · 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 P60932
Elsewhere: RCSB PDB 6CB2 · PDBe 6CB2 · UniProt P60932

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