MolNFT v1 · #128720 · protein

Clostridium thermocellum cellodextrin phosphorylase ligand free form

5NZ7: “Clostridium thermocellum cellodextrin phosphorylase ligand free form”. X-ray diffraction, 1 ligand (CL), 20 pockets (best druggability 0.88). MolNFT v1 #128720 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5NZ7
Type: protein
Length: 1,962 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cellodextrin phosphorylase
UniProt: Q93HT8
Ligands: CL
Pockets: 20 · best druggability 0.88

Structure

x-ray diffraction · 2 distinct chains · 32% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Cellodextrin phosphorylase	protein	984	32% helix, 26% strand	Q93HT8
B	Cellodextrin phosphorylase	protein	978	32% helix, 25% strand	Q93HT8

Ligands and binding sites

CL · Chloride ion · ion · 6 copies · chains A, B

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

Pockets

20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	889	0.88	0.90	112	empty
2	373	0.76	0.86	43	empty
3	447	0.74	0.83	45	empty
4	174	0.74	0.91	34	empty
5	668	0.72	0.79	62	CL

Interfaces

1 interface between chains.

A–B · 5000 Å² buried · 64 hydrogen bonds · protein-protein

Compared structures

5NZ7 · Clostridium thermocellum cellodextrin phosphorylase ligand free form · 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 Q93HT8
Elsewhere: RCSB PDB 5NZ7 · PDBe 5NZ7 · UniProt Q93HT8

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