MolNFT v1 · #51653 · protein

Crystallographic structure of levansucrase from bacillus subtilis mutant S164A

2VDT: “Crystallographic structure of levansucrase from bacillus subtilis mutant S164A”. X-ray diffraction, 1 ligand (CA), 2 pockets (best druggability 0.55). MolNFT v1 #51653 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2VDT
Type: protein
Length: 439 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Levansucrase
EC: 2.4.1.10
UniProt: P05655
Ligands: CA
Pockets: 2 · best druggability 0.55

Structure

x-ray diffraction · 1 distinct chain · 12% helix, 32% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Levansucrase (EC 2.4.1.10)	protein	439	12% helix, 32% strand	P05655

Ligands and binding sites

CA · Calcium ion · metal · chains A

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

Pockets

2 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	232	0.55	0.78	31	empty
2	55	0.25	0.73	15	empty

Compared structures

2VDT · Crystallographic structure of Levansucrase from Bacillus subtilis mutant S164A · the same entry in another collection · chain A against A, TM-score 1.00
P05655 · AlphaFold monomer V2.0 prediction for levansucrase (P05655) · a predicted model of the same protein · 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 P05655
Elsewhere: RCSB PDB 2VDT · PDBe 2VDT · UniProt P05655

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