MolNFT v1 · #145077 · protein

NPL4 zinc finger and mpn domains (chaetomium thermophilum)

6CDD: “NPL4 zinc finger and mpn domains (chaetomium thermophilum)”. X-ray diffraction, 1 ligand (ZN), 19 pockets (best druggability 0.60). MolNFT v1 #145077 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6CDD
Type: protein
Length: 915 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: NPL4 zinc finger
UniProt: G0S0B4
Ligands: ZN
Pockets: 19 · best druggability 0.60

Structure

x-ray diffraction · 2 distinct chains · 27% helix, 23% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	NPL4 zinc finger	protein	459	28% helix, 24% strand	G0S0B4
B	NPL4 zinc finger	protein	456	27% helix, 22% strand	G0S0B4

Ligands and binding sites

ZN · Zinc ion · metal · 4 copies · chains A, B

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

Pockets

19 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	86	0.60	0.88	19	empty
2	317	0.58	0.77	38	empty
3	83	0.56	0.86	19	empty
4	116	0.47	0.79	19	empty
5	131	0.44	0.76	21	empty

Interfaces

1 interface between chains.

A–B · 442 Å² buried · 6 hydrogen bonds · protein-protein

Compared structures

6CDD · Npl4 zinc finger and MPN domains (Chaetomium thermophilum) · 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 G0S0B4
Elsewhere: RCSB PDB 6CDD · PDBe 6CDD · UniProt G0S0B4

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