MolNFT v1 · #6798 · protein

Crystal structure of CDC6P from pyrobaculum aerophilum

1FNN · Cell division control protein 6: “Crystal structure of CDC6P from pyrobaculum aerophilum”. X-ray diffraction, 2 ligands (ADP, MG), 7 pockets (best druggability 0.69). MolNFT v1 #6798 on GenesisL1: 3D structure, binding sites and…

PDB: 1FNN
Type: protein
Length: 758 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cell division control protein 6
UniProt: Q8ZYK1
Ligands: ADP, MG
Pockets: 7 · best druggability 0.69

Structure

x-ray diffraction · 1 distinct chain · 54% helix, 11% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Cell division control protein 6	protein	379	54% helix, 11% strand	Q8ZYK1

Ligands and binding sites

ADP · Adenosine-5'-diphosphate · ligand · 2 copies · chains A, B
MG · Magnesium ion · metal · 2 copies · chains A, B

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

Pockets

7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	467	0.69	0.80	47	MG, ADP
2	464	0.67	0.79	43	MG, ADP
3	156	0.50	0.78	18	empty
4	154	0.48	0.77	21	empty
5	102	0.43	0.78	22	empty

Interfaces

1 interface between chains.

A–B · 1116 Å² buried · 32 hydrogen bonds · protein-protein

Compared structures

1FNN · Crystal structure of CDC6P from pyrobaculum aerophilum · 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 Q8ZYK1
Elsewhere: RCSB PDB 1FNN · PDBe 1FNN · UniProt Q8ZYK1

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