MolNFT v1 · #134466 · protein

Crystal structure of PDE6D in apo-state

5T4X · Retinal rod rhodopsin-sensitive cgmp 3',5'-cyclic…: “Crystal structure of PDE6D in apo-state”. X-ray diffraction, 1 pocket (best druggability 0.76). MolNFT v1 #134466 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5T4X
Type: protein
Length: 148 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Retinal rod rhodopsin-sensitive cgmp 3',5'-cyclic phosphodiesterase subunit delta
UniProt: O55057
Pockets: 1 · best druggability 0.76

Structure

x-ray diffraction · 1 distinct chain · 14% helix, 57% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Retinal rod rhodopsin-sensitive cgmp 3',5'-cyclic phosphodiesterase subunit delta	protein	148	14% helix, 57% strand	O55057

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	340	0.76	0.86	40	empty

Compared structures

5T4X · Crystal structure of PDE6D in apo-state · the same entry in another collection · chain A against A, TM-score 1.00
O55057 · AlphaFold monomer V2.0 prediction for retinal rod rhodopsin-sensitive cgmp 3',5'-cyclic… · a predicted model of the same protein · chain A against A, TM-score 0.96

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 O55057
Elsewhere: RCSB PDB 5T4X · PDBe 5T4X · UniProt O55057

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