MolNFT v1 · #170317 · protein

Crystal structure of the C-terminal domain from K. lactis PBY1, an ATP-grasp enzyme interacting with the mRNA decapping enzyme DCP2

6Y3P · KLLA0B12012P: “Crystal structure of the C-terminal domain from K. lactis PBY1, an ATP-grasp enzyme interacting with the mRNA…”. X-ray diffraction, 1 ligand (SO4), 5 pockets (best druggability 0.62). MolNFT v1 #170317 on GenesisL1…

PDB: 6Y3P
Type: protein
Length: 360 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: KLLA0B12012P
UniProt: Q6CVH5
Ligands: SO4
Pockets: 5 · best druggability 0.62

Structure

x-ray diffraction · 1 distinct chain · 36% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	KLLA0B12012P	protein	360	36% helix, 25% strand	Q6CVH5

Ligands and binding sites

SO4 · Sulfate ion · ion · 4 copies · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	388	0.62	0.77	43	empty
2	51	0.46	0.84	16	empty
3	103	0.40	0.76	19	empty
4	67	0.33	0.76	14	empty
5	60	0.32	0.76	13	empty

Compared structures

6Y3P · Crystal structure of the C-terminal domain from K. lactis Pby1, an ATP-grasp enzyme… · 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 Q6CVH5
Elsewhere: RCSB PDB 6Y3P · PDBe 6Y3P · UniProt Q6CVH5

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