MolNFT v1 · #106789 · protein

Structure of a ubia homolog from archaeoglobus fulgidus bound to CD2+

4TQ6 · Prenyltransferase: “Structure of a ubia homolog from archaeoglobus fulgidus bound to CD2+”. X-ray diffraction, 1 ligand (CD), 5 pockets (best druggability 0.82). MolNFT v1 #106789 on GenesisL1: 3D structure, binding sites and…

PDB: 4TQ6
Type: protein
Length: 532 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Prenyltransferase
UniProt: O28625
Ligands: CD
Pockets: 5 · best druggability 0.82

Structure

x-ray diffraction · 2 distinct chains · 77% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Prenyltransferase	protein	266	77% helix, 0% strand	O28625
B	Prenyltransferase	protein	266	76% helix, 0% strand	O28625

Ligands and binding sites

CD · Cadmium ion · metal · 8 copies · chains A, B

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

Pockets

5 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	658	0.82	0.86	64	CD
2	833	0.80	0.83	75	CD
3	122	0.62	0.86	18	empty
4	80	0.59	0.88	16	empty
5	63	0.32	0.75	15	empty

Interfaces

1 interface between chains.

A–B · 604 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

4TQ6 · Structure of a UbiA homolog from Archaeoglobus fulgidus bound to Cd2+ · 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 O28625
Elsewhere: RCSB PDB 4TQ6 · PDBe 4TQ6 · UniProt O28625

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