MolNFT v1 · #42099 · protein

Solution structure of plaa family ubiquitin binding domain (pfuc) cis isomer in complex with ubiquitin

2K8B: “Solution structure of plaa family ubiquitin binding domain (pfuc) cis isomer in complex with ubiquitin”. Solution nmr, 1 pocket (best druggability 0.51). MolNFT v1 #42099 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2K8B
Type: protein
Length: 156 residues
Chains: 2
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ubiquitin; Phospholipase a-2-activating protein
UniProt: P62988, Q9Y263
Pockets: 1 · best druggability 0.51

Structure

solution nmr · 2 distinct chains · 24% helix, 27% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Ubiquitin	protein	76	14% helix, 34% strand	P62988
B	Phospholipase a-2-activating protein	protein	80	34% helix, 20% strand	Q9Y263

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	75	0.51	0.84	17	empty

Interfaces

1 interface between chains.

A–B · 775 Å² buried · 12 hydrogen bonds · protein-protein

Compared structures

2K8B · Solution structure of PLAA family ubiquitin binding domain (PFUC) cis isomer in complex… · the same entry in another collection · chain A against A, TM-score 1.00
Q9Y263 · AlphaFold monomer V2.0 prediction for phospholipase a-2-activating protein (Q9Y263) · a predicted model of the same protein · chain B against A, TM-score 0.67

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 P62988
Every structure of UniProt Q9Y263
Elsewhere: RCSB PDB 2K8B · PDBe 2K8B · UniProt P62988 · UniProt Q9Y263

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