Research workbench

Solution structures of human piwi-like 1 paz domain with ssrna (5'- pugaca)

Analyse Solution structures of human piwi-like 1 paz domain with ssrna (5'- pugaca) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2L5D
Type: protein + RNA
Length: 139 residues
Chains: 2
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Piwi-like protein 1; 5'-R(*UP*GP*AP*CP*A)-3'
UniProt: Q96J94
Pockets: 1 · best druggability 0.27

Structure

solution nmr · 2 distinct chains · 22% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Piwi-like protein 1	protein	134	22% helix, 22% strand	Q96J94
B	5'-R(UPGPAPCP*A)-3'	rna	5	—	—

Pockets

1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	63	0.27	0.73	17	empty

Interfaces

1 interface between chains.

A–B · 355 Å² buried · 6 hydrogen bonds · protein-nucleic

Compared structures

2L5D · Solution Structures of human PIWI-like 1 PAZ domain with ssRNA (5'-pUGACA) · the same entry in another collection · chain A against A, TM-score 1.00
Q96J94 · AlphaFold monomer V2.0 prediction for piwi-like protein 1 (Q96J94) · a predicted model of the same protein · chain A against A, TM-score 0.72

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 Q96J94
Elsewhere: RCSB PDB 2L5D · PDBe 2L5D · UniProt Q96J94

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.